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All RNAs from the RNAstrand dataset
robustness test

	All RNAs from RNAstrand dataset were used to benchmark RNA secondary structure prediction methods. Input for comparative methods consisted of a sequence collection / an alignment containing the query sequence and all sequences from a given seed alignment for an Rfam family identified for the query. This ranking tests the robustness of methods predicting RNA secondary structure - if a given method did not return any prediction (i.e. because it crashed or couldn't be run on a sequence longer than a given threshold), it was assumed that according to that method a given RNA was single stranded. In this benchmark all 1987 sequences were included.
Updated: Oct. 3, 2012
Base pair definition: extended
Type of RNA structures: all (including pseudoknotted)
RNA sequence length range: 20, 30000
Number of RNA sequences: 1987
Robustness test: yes, on all RNAs

In the summary below ranks have been assigned only to methods, for which at least 40% of comparisons with other methods is valid (i.e. at least 40% (in case of this ranking: 21) of the comparisons were based on at least 10 predictions for common targets).

The ratio 40% / 60% was chosen in order not to bias methods for which not enough predictions have been collected.

Summary of pairwise comparisons

54 methods predicting RNA secondary structure were compared with each other (thus each method has 53 comparisons with other methods (sum of values from columns "Wins", "Losses", "=" and "?" in each row)).

Legend:

=	draw - it is assigned when both methods have generated >= 10 predictions for common targets if:
	1) the accuracies of their results are statistically not distinguishable (P-value greater than 0.001),
	or
	2) the numbers of base pairs classified to categories True Positivies (TP), True Negatives (TN), False Positivies (FP, including 3 subcategories) and False Negatives (FN) for both methods are the same.
?	two methods cannot be compared ("no winner") - not enough predictions for a given pair of methods (minimum is 10)
N/A	a method for which more than 32 (60%) of comparisons with other methods is invalid (see column "?").

Rank	Method Name	Trained	Wins	Losses	=	?	Predictions attempted	Predictions generated	MCC
1	ContextFold	yes	53	0	0	0	1987	1987	0.680
2	IPknot	yes	52	1	0	0	1987	1972	0.548
3	PETfold_pre2.0(seed)	no	51	2	0	0	1987	1224	0.529
4	Contrafold	yes	50	3	0	0	1987	1973	0.508
5	CentroidFold	yes	49	4	0	0	1987	1915	0.470
6	Sfold	no	48	5	0	0	1987	1973	0.469
7	MaxExpect	yes	47	6	0	0	1987	1973	0.465
8	ProbKnot	yes	46	7	0	0	1987	1973	0.460
9	UNAFold	no	45	8	0	0	1987	1987	0.445
10	Fold	no	43	9	1	0	1987	1973	0.437
10	CentroidAlifold(seed)	yes	43	9	1	0	1987	706	0.438
12	RNAfold	no	42	11	0	0	1987	1973	0.429
13	CentroidHomfold‑LAST	yes	41	12	0	0	1987	1641	0.428
14	PETfold_pre2.0(20)	no	40	13	0	0	1987	639	0.413
15	CentroidAlifold(20)	yes	39	14	0	0	1987	642	0.411
16	PknotsRG	no	37	15	1	0	1987	1868	0.386
16	MXScarna(seed)	no	37	15	1	0	1987	728	0.385
18	RNAalifold(20)	no	36	17	0	0	1987	642	0.381
19	RNAalifold(seed)	no	35	18	0	0	1987	700	0.375
20	Afold	no	33	19	1	0	1987	1275	0.358
20	MXScarna(20)	no	33	19	1	0	1987	642	0.359
22	CRWrnafold	yes	32	21	0	0	1987	1837	0.346
23	RNAsubopt	no	31	22	0	0	1987	1641	0.336
24	McQFold	yes	30	23	0	0	1987	1707	0.314
25	TurboFold(20)	no	29	24	0	0	1987	565	0.301
26	PPfold(20)	yes	28	25	0	0	1987	558	0.298
27	RNAshapes	no	27	26	0	0	1987	1588	0.295
28	Carnac(20)	no	26	27	0	0	1987	642	0.288
29	RNASLOpt	no	25	28	0	0	1987	1543	0.281
30	RSpredict(20)	no	24	29	0	0	1987	642	0.270
31	RNAwolf	yes	22	30	1	0	1987	1788	0.251
31	Multilign(20)	no	22	30	1	0	1987	534	0.251
33	Murlet(20)	yes	21	32	0	0	1987	504	0.230
34	Vsfold4	no	20	33	0	0	1987	1612	0.217
35	Vsfold5	no	18	34	1	0	1987	1602	0.211
36	RSpredict(seed)	no	17	34	2	0	1987	702	0.212
37	CMfinder(20)	yes	17	35	1	0	1987	561	0.210
38	HotKnots	no	16	37	0	0	1987	876	0.179
39	RNASampler(20)	no	15	38	0	0	1987	393	0.176
40	Cylofold	no	14	39	0	0	1987	798	0.155
41	Pknots	no	13	40	0	0	1987	697	0.143
42	Mastr(20)	yes	12	41	0	0	1987	592	0.134
43	Alterna	no	11	42	0	0	1987	693	0.129
44	MCFold	yes	10	43	0	0	1987	761	0.125
45	RDfolder	no	9	44	0	0	1987	693	0.122
46	CMfinder(seed)	yes	7	45	1	0	1987	129	0.080
46	Murlet(seed)	yes	7	45	1	0	1987	123	0.079
48	TurboFold(seed)	no	6	47	0	0	1987	51	0.076
49	PPfold(seed)	yes	5	48	0	0	1987	63	0.069
50	Carnac(seed)	no	4	49	0	0	1987	269	0.066
51	RNASampler(seed)	no	3	50	0	0	1987	98	0.063
52	Mastr(seed)	yes	1	51	1	0	1987	644	0.051
52	NanoFolder	yes	1	51	1	0	1987	251	0.052
54	Multilign(seed)	no	0	53	0	0	1987	23	0.043

Detailed results of pairwise comparisons between methods

Legend:

+	method on the left scored higher in this pairwise comparison
-	method on the left scored lower in this pairwise comparison
=	draw - it is assigned when both methods have generated >= 10 predictions for common targets if:
	1) the accuracies of their results are statistically not distinguishable (P-value greater than 0.001),
	or
	2) the numbers of base pairs classified to categories True Positivies (TP), True Negatives (TN), False Positivies (FP, including 3 subcategories) and False Negatives (FN) for both methods are the same.
?	two methods cannot be compared ("no winner") - not enough predictions for a given pair of methods (minimum is 10)

P-values were obtained using Wilcoxon signed-rank test taking 2 sets of 40 MCC values obtained for 40 random subsets of 90% of the dataset for each pair of methods. If the P-value is lower than 0.001 and there are at least 10 sequences on which benchmark was performed, the difference between the performance of two methods is assumed to be statistically sound.


ContextFold		+ ContextFold vs IPknot Matthews Correlation Coefficient ContextFold: 0.680 IPknot: 0.548 Sensitivity ContextFold: 0.644 IPknot: 0.475 Positive Predictive Value ContextFold: 0.718 IPknot: 0.632 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs PETfold_pre2.0(seed) Matthews Correlation Coefficient ContextFold: 0.680 PETfold_pre2.0(seed): 0.529 Sensitivity ContextFold: 0.644 PETfold_pre2.0(seed): 0.343 Positive Predictive Value ContextFold: 0.718 PETfold_pre2.0(seed): 0.814 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Contrafold Matthews Correlation Coefficient ContextFold: 0.680 Contrafold: 0.508 Sensitivity ContextFold: 0.644 Contrafold: 0.481 Positive Predictive Value ContextFold: 0.718 Contrafold: 0.537 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs CentroidFold Matthews Correlation Coefficient ContextFold: 0.680 CentroidFold: 0.470 Sensitivity ContextFold: 0.644 CentroidFold: 0.369 Positive Predictive Value ContextFold: 0.718 CentroidFold: 0.600 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Sfold Matthews Correlation Coefficient ContextFold: 0.680 Sfold: 0.469 Sensitivity ContextFold: 0.644 Sfold: 0.412 Positive Predictive Value ContextFold: 0.718 Sfold: 0.535 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs MaxExpect Matthews Correlation Coefficient ContextFold: 0.680 MaxExpect: 0.465 Sensitivity ContextFold: 0.644 MaxExpect: 0.443 Positive Predictive Value ContextFold: 0.718 MaxExpect: 0.488 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs ProbKnot Matthews Correlation Coefficient ContextFold: 0.680 ProbKnot: 0.460 Sensitivity ContextFold: 0.644 ProbKnot: 0.446 Positive Predictive Value ContextFold: 0.718 ProbKnot: 0.475 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs UNAFold Matthews Correlation Coefficient ContextFold: 0.680 UNAFold: 0.445 Sensitivity ContextFold: 0.644 UNAFold: 0.445 Positive Predictive Value ContextFold: 0.718 UNAFold: 0.446 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs CentroidAlifold(seed) Matthews Correlation Coefficient ContextFold: 0.680 CentroidAlifold(seed): 0.438 Sensitivity ContextFold: 0.644 CentroidAlifold(seed): 0.213 Positive Predictive Value ContextFold: 0.718 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Fold Matthews Correlation Coefficient ContextFold: 0.680 Fold: 0.437 Sensitivity ContextFold: 0.644 Fold: 0.432 Positive Predictive Value ContextFold: 0.718 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RNAfold Matthews Correlation Coefficient ContextFold: 0.680 RNAfold: 0.429 Sensitivity ContextFold: 0.644 RNAfold: 0.422 Positive Predictive Value ContextFold: 0.718 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs CentroidHomfold‑LAST Matthews Correlation Coefficient ContextFold: 0.680 CentroidHomfold‑LAST: 0.428 Sensitivity ContextFold: 0.644 CentroidHomfold‑LAST: 0.216 Positive Predictive Value ContextFold: 0.718 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs PETfold_pre2.0(20) Matthews Correlation Coefficient ContextFold: 0.680 PETfold_pre2.0(20): 0.413 Sensitivity ContextFold: 0.644 PETfold_pre2.0(20): 0.211 Positive Predictive Value ContextFold: 0.718 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs CentroidAlifold(20) Matthews Correlation Coefficient ContextFold: 0.680 CentroidAlifold(20): 0.411 Sensitivity ContextFold: 0.644 CentroidAlifold(20): 0.190 Positive Predictive Value ContextFold: 0.718 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs PknotsRG Matthews Correlation Coefficient ContextFold: 0.680 PknotsRG: 0.386 Sensitivity ContextFold: 0.644 PknotsRG: 0.320 Positive Predictive Value ContextFold: 0.718 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs MXScarna(seed) Matthews Correlation Coefficient ContextFold: 0.680 MXScarna(seed): 0.385 Sensitivity ContextFold: 0.644 MXScarna(seed): 0.196 Positive Predictive Value ContextFold: 0.718 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RNAalifold(20) Matthews Correlation Coefficient ContextFold: 0.680 RNAalifold(20): 0.381 Sensitivity ContextFold: 0.644 RNAalifold(20): 0.185 Positive Predictive Value ContextFold: 0.718 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RNAalifold(seed) Matthews Correlation Coefficient ContextFold: 0.680 RNAalifold(seed): 0.375 Sensitivity ContextFold: 0.644 RNAalifold(seed): 0.169 Positive Predictive Value ContextFold: 0.718 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Afold Matthews Correlation Coefficient ContextFold: 0.680 Afold: 0.358 Sensitivity ContextFold: 0.644 Afold: 0.295 Positive Predictive Value ContextFold: 0.718 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs MXScarna(20) Matthews Correlation Coefficient ContextFold: 0.680 MXScarna(20): 0.359 Sensitivity ContextFold: 0.644 MXScarna(20): 0.181 Positive Predictive Value ContextFold: 0.718 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs CRWrnafold Matthews Correlation Coefficient ContextFold: 0.680 CRWrnafold: 0.346 Sensitivity ContextFold: 0.644 CRWrnafold: 0.275 Positive Predictive Value ContextFold: 0.718 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RNAsubopt Matthews Correlation Coefficient ContextFold: 0.680 RNAsubopt: 0.336 Sensitivity ContextFold: 0.644 RNAsubopt: 0.217 Positive Predictive Value ContextFold: 0.718 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs McQFold Matthews Correlation Coefficient ContextFold: 0.680 McQFold: 0.314 Sensitivity ContextFold: 0.644 McQFold: 0.205 Positive Predictive Value ContextFold: 0.718 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs TurboFold(20) Matthews Correlation Coefficient ContextFold: 0.680 TurboFold(20): 0.301 Sensitivity ContextFold: 0.644 TurboFold(20): 0.108 Positive Predictive Value ContextFold: 0.718 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs PPfold(20) Matthews Correlation Coefficient ContextFold: 0.680 PPfold(20): 0.298 Sensitivity ContextFold: 0.644 PPfold(20): 0.101 Positive Predictive Value ContextFold: 0.718 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RNAshapes Matthews Correlation Coefficient ContextFold: 0.680 RNAshapes: 0.295 Sensitivity ContextFold: 0.644 RNAshapes: 0.180 Positive Predictive Value ContextFold: 0.718 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Carnac(20) Matthews Correlation Coefficient ContextFold: 0.680 Carnac(20): 0.288 Sensitivity ContextFold: 0.644 Carnac(20): 0.093 Positive Predictive Value ContextFold: 0.718 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RNASLOpt Matthews Correlation Coefficient ContextFold: 0.680 RNASLOpt: 0.281 Sensitivity ContextFold: 0.644 RNASLOpt: 0.158 Positive Predictive Value ContextFold: 0.718 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RSpredict(20) Matthews Correlation Coefficient ContextFold: 0.680 RSpredict(20): 0.270 Sensitivity ContextFold: 0.644 RSpredict(20): 0.124 Positive Predictive Value ContextFold: 0.718 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Multilign(20) Matthews Correlation Coefficient ContextFold: 0.680 Multilign(20): 0.251 Sensitivity ContextFold: 0.644 Multilign(20): 0.083 Positive Predictive Value ContextFold: 0.718 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RNAwolf Matthews Correlation Coefficient ContextFold: 0.680 RNAwolf: 0.251 Sensitivity ContextFold: 0.644 RNAwolf: 0.191 Positive Predictive Value ContextFold: 0.718 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Murlet(20) Matthews Correlation Coefficient ContextFold: 0.680 Murlet(20): 0.230 Sensitivity ContextFold: 0.644 Murlet(20): 0.067 Positive Predictive Value ContextFold: 0.718 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Vsfold4 Matthews Correlation Coefficient ContextFold: 0.680 Vsfold4: 0.217 Sensitivity ContextFold: 0.644 Vsfold4: 0.125 Positive Predictive Value ContextFold: 0.718 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Vsfold5 Matthews Correlation Coefficient ContextFold: 0.680 Vsfold5: 0.211 Sensitivity ContextFold: 0.644 Vsfold5: 0.125 Positive Predictive Value ContextFold: 0.718 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RSpredict(seed) Matthews Correlation Coefficient ContextFold: 0.680 RSpredict(seed): 0.212 Sensitivity ContextFold: 0.644 RSpredict(seed): 0.075 Positive Predictive Value ContextFold: 0.718 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs CMfinder(20) Matthews Correlation Coefficient ContextFold: 0.680 CMfinder(20): 0.210 Sensitivity ContextFold: 0.644 CMfinder(20): 0.055 Positive Predictive Value ContextFold: 0.718 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs HotKnots Matthews Correlation Coefficient ContextFold: 0.680 HotKnots: 0.179 Sensitivity ContextFold: 0.644 HotKnots: 0.051 Positive Predictive Value ContextFold: 0.718 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RNASampler(20) Matthews Correlation Coefficient ContextFold: 0.680 RNASampler(20): 0.176 Sensitivity ContextFold: 0.644 RNASampler(20): 0.035 Positive Predictive Value ContextFold: 0.718 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Cylofold Matthews Correlation Coefficient ContextFold: 0.680 Cylofold: 0.155 Sensitivity ContextFold: 0.644 Cylofold: 0.040 Positive Predictive Value ContextFold: 0.718 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Pknots Matthews Correlation Coefficient ContextFold: 0.680 Pknots: 0.143 Sensitivity ContextFold: 0.644 Pknots: 0.033 Positive Predictive Value ContextFold: 0.718 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Mastr(20) Matthews Correlation Coefficient ContextFold: 0.680 Mastr(20): 0.134 Sensitivity ContextFold: 0.644 Mastr(20): 0.023 Positive Predictive Value ContextFold: 0.718 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Alterna Matthews Correlation Coefficient ContextFold: 0.680 Alterna: 0.129 Sensitivity ContextFold: 0.644 Alterna: 0.030 Positive Predictive Value ContextFold: 0.718 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs MCFold Matthews Correlation Coefficient ContextFold: 0.680 MCFold: 0.125 Sensitivity ContextFold: 0.644 MCFold: 0.036 Positive Predictive Value ContextFold: 0.718 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RDfolder Matthews Correlation Coefficient ContextFold: 0.680 RDfolder: 0.122 Sensitivity ContextFold: 0.644 RDfolder: 0.025 Positive Predictive Value ContextFold: 0.718 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Murlet(seed) Matthews Correlation Coefficient ContextFold: 0.680 Murlet(seed): 0.079 Sensitivity ContextFold: 0.644 Murlet(seed): 0.008 Positive Predictive Value ContextFold: 0.718 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs CMfinder(seed) Matthews Correlation Coefficient ContextFold: 0.680 CMfinder(seed): 0.080 Sensitivity ContextFold: 0.644 CMfinder(seed): 0.008 Positive Predictive Value ContextFold: 0.718 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs TurboFold(seed) Matthews Correlation Coefficient ContextFold: 0.680 TurboFold(seed): 0.076 Sensitivity ContextFold: 0.644 TurboFold(seed): 0.007 Positive Predictive Value ContextFold: 0.718 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs PPfold(seed) Matthews Correlation Coefficient ContextFold: 0.680 PPfold(seed): 0.069 Sensitivity ContextFold: 0.644 PPfold(seed): 0.006 Positive Predictive Value ContextFold: 0.718 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Carnac(seed) Matthews Correlation Coefficient ContextFold: 0.680 Carnac(seed): 0.066 Sensitivity ContextFold: 0.644 Carnac(seed): 0.005 Positive Predictive Value ContextFold: 0.718 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RNASampler(seed) Matthews Correlation Coefficient ContextFold: 0.680 RNASampler(seed): 0.063 Sensitivity ContextFold: 0.644 RNASampler(seed): 0.005 Positive Predictive Value ContextFold: 0.718 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs NanoFolder Matthews Correlation Coefficient ContextFold: 0.680 NanoFolder: 0.052 Sensitivity ContextFold: 0.644 NanoFolder: 0.016 Positive Predictive Value ContextFold: 0.718 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Mastr(seed) Matthews Correlation Coefficient ContextFold: 0.680 Mastr(seed): 0.051 Sensitivity ContextFold: 0.644 Mastr(seed): 0.003 Positive Predictive Value ContextFold: 0.718 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Multilign(seed) Matthews Correlation Coefficient ContextFold: 0.680 Multilign(seed): 0.043 Sensitivity ContextFold: 0.644 Multilign(seed): 0.003 Positive Predictive Value ContextFold: 0.718 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
IPknot	1987 ContextFold vs IPknot Matthews Correlation Coefficient ContextFold: 0.680 IPknot: 0.548 Sensitivity ContextFold: 0.644 IPknot: 0.475 Positive Predictive Value ContextFold: 0.718 IPknot: 0.632 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ IPknot vs PETfold_pre2.0(seed) Matthews Correlation Coefficient IPknot: 0.548 PETfold_pre2.0(seed): 0.529 Sensitivity IPknot: 0.475 PETfold_pre2.0(seed): 0.343 Positive Predictive Value IPknot: 0.632 PETfold_pre2.0(seed): 0.814 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Contrafold Matthews Correlation Coefficient IPknot: 0.548 Contrafold: 0.508 Sensitivity IPknot: 0.475 Contrafold: 0.481 Positive Predictive Value IPknot: 0.632 Contrafold: 0.537 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs CentroidFold Matthews Correlation Coefficient IPknot: 0.548 CentroidFold: 0.470 Sensitivity IPknot: 0.475 CentroidFold: 0.369 Positive Predictive Value IPknot: 0.632 CentroidFold: 0.600 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Sfold Matthews Correlation Coefficient IPknot: 0.548 Sfold: 0.469 Sensitivity IPknot: 0.475 Sfold: 0.412 Positive Predictive Value IPknot: 0.632 Sfold: 0.535 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs MaxExpect Matthews Correlation Coefficient IPknot: 0.548 MaxExpect: 0.465 Sensitivity IPknot: 0.475 MaxExpect: 0.443 Positive Predictive Value IPknot: 0.632 MaxExpect: 0.488 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs ProbKnot Matthews Correlation Coefficient IPknot: 0.548 ProbKnot: 0.460 Sensitivity IPknot: 0.475 ProbKnot: 0.446 Positive Predictive Value IPknot: 0.632 ProbKnot: 0.475 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs UNAFold Matthews Correlation Coefficient IPknot: 0.548 UNAFold: 0.445 Sensitivity IPknot: 0.475 UNAFold: 0.445 Positive Predictive Value IPknot: 0.632 UNAFold: 0.446 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs CentroidAlifold(seed) Matthews Correlation Coefficient IPknot: 0.548 CentroidAlifold(seed): 0.438 Sensitivity IPknot: 0.475 CentroidAlifold(seed): 0.213 Positive Predictive Value IPknot: 0.632 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Fold Matthews Correlation Coefficient IPknot: 0.548 Fold: 0.437 Sensitivity IPknot: 0.475 Fold: 0.432 Positive Predictive Value IPknot: 0.632 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RNAfold Matthews Correlation Coefficient IPknot: 0.548 RNAfold: 0.429 Sensitivity IPknot: 0.475 RNAfold: 0.422 Positive Predictive Value IPknot: 0.632 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs CentroidHomfold‑LAST Matthews Correlation Coefficient IPknot: 0.548 CentroidHomfold‑LAST: 0.428 Sensitivity IPknot: 0.475 CentroidHomfold‑LAST: 0.216 Positive Predictive Value IPknot: 0.632 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs PETfold_pre2.0(20) Matthews Correlation Coefficient IPknot: 0.548 PETfold_pre2.0(20): 0.413 Sensitivity IPknot: 0.475 PETfold_pre2.0(20): 0.211 Positive Predictive Value IPknot: 0.632 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs CentroidAlifold(20) Matthews Correlation Coefficient IPknot: 0.548 CentroidAlifold(20): 0.411 Sensitivity IPknot: 0.475 CentroidAlifold(20): 0.190 Positive Predictive Value IPknot: 0.632 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs PknotsRG Matthews Correlation Coefficient IPknot: 0.548 PknotsRG: 0.386 Sensitivity IPknot: 0.475 PknotsRG: 0.320 Positive Predictive Value IPknot: 0.632 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs MXScarna(seed) Matthews Correlation Coefficient IPknot: 0.548 MXScarna(seed): 0.385 Sensitivity IPknot: 0.475 MXScarna(seed): 0.196 Positive Predictive Value IPknot: 0.632 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RNAalifold(20) Matthews Correlation Coefficient IPknot: 0.548 RNAalifold(20): 0.381 Sensitivity IPknot: 0.475 RNAalifold(20): 0.185 Positive Predictive Value IPknot: 0.632 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RNAalifold(seed) Matthews Correlation Coefficient IPknot: 0.548 RNAalifold(seed): 0.375 Sensitivity IPknot: 0.475 RNAalifold(seed): 0.169 Positive Predictive Value IPknot: 0.632 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Afold Matthews Correlation Coefficient IPknot: 0.548 Afold: 0.358 Sensitivity IPknot: 0.475 Afold: 0.295 Positive Predictive Value IPknot: 0.632 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs MXScarna(20) Matthews Correlation Coefficient IPknot: 0.548 MXScarna(20): 0.359 Sensitivity IPknot: 0.475 MXScarna(20): 0.181 Positive Predictive Value IPknot: 0.632 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs CRWrnafold Matthews Correlation Coefficient IPknot: 0.548 CRWrnafold: 0.346 Sensitivity IPknot: 0.475 CRWrnafold: 0.275 Positive Predictive Value IPknot: 0.632 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RNAsubopt Matthews Correlation Coefficient IPknot: 0.548 RNAsubopt: 0.336 Sensitivity IPknot: 0.475 RNAsubopt: 0.217 Positive Predictive Value IPknot: 0.632 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs McQFold Matthews Correlation Coefficient IPknot: 0.548 McQFold: 0.314 Sensitivity IPknot: 0.475 McQFold: 0.205 Positive Predictive Value IPknot: 0.632 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs TurboFold(20) Matthews Correlation Coefficient IPknot: 0.548 TurboFold(20): 0.301 Sensitivity IPknot: 0.475 TurboFold(20): 0.108 Positive Predictive Value IPknot: 0.632 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs PPfold(20) Matthews Correlation Coefficient IPknot: 0.548 PPfold(20): 0.298 Sensitivity IPknot: 0.475 PPfold(20): 0.101 Positive Predictive Value IPknot: 0.632 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RNAshapes Matthews Correlation Coefficient IPknot: 0.548 RNAshapes: 0.295 Sensitivity IPknot: 0.475 RNAshapes: 0.180 Positive Predictive Value IPknot: 0.632 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Carnac(20) Matthews Correlation Coefficient IPknot: 0.548 Carnac(20): 0.288 Sensitivity IPknot: 0.475 Carnac(20): 0.093 Positive Predictive Value IPknot: 0.632 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RNASLOpt Matthews Correlation Coefficient IPknot: 0.548 RNASLOpt: 0.281 Sensitivity IPknot: 0.475 RNASLOpt: 0.158 Positive Predictive Value IPknot: 0.632 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RSpredict(20) Matthews Correlation Coefficient IPknot: 0.548 RSpredict(20): 0.270 Sensitivity IPknot: 0.475 RSpredict(20): 0.124 Positive Predictive Value IPknot: 0.632 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Multilign(20) Matthews Correlation Coefficient IPknot: 0.548 Multilign(20): 0.251 Sensitivity IPknot: 0.475 Multilign(20): 0.083 Positive Predictive Value IPknot: 0.632 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RNAwolf Matthews Correlation Coefficient IPknot: 0.548 RNAwolf: 0.251 Sensitivity IPknot: 0.475 RNAwolf: 0.191 Positive Predictive Value IPknot: 0.632 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Murlet(20) Matthews Correlation Coefficient IPknot: 0.548 Murlet(20): 0.230 Sensitivity IPknot: 0.475 Murlet(20): 0.067 Positive Predictive Value IPknot: 0.632 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Vsfold4 Matthews Correlation Coefficient IPknot: 0.548 Vsfold4: 0.217 Sensitivity IPknot: 0.475 Vsfold4: 0.125 Positive Predictive Value IPknot: 0.632 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Vsfold5 Matthews Correlation Coefficient IPknot: 0.548 Vsfold5: 0.211 Sensitivity IPknot: 0.475 Vsfold5: 0.125 Positive Predictive Value IPknot: 0.632 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RSpredict(seed) Matthews Correlation Coefficient IPknot: 0.548 RSpredict(seed): 0.212 Sensitivity IPknot: 0.475 RSpredict(seed): 0.075 Positive Predictive Value IPknot: 0.632 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs CMfinder(20) Matthews Correlation Coefficient IPknot: 0.548 CMfinder(20): 0.210 Sensitivity IPknot: 0.475 CMfinder(20): 0.055 Positive Predictive Value IPknot: 0.632 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs HotKnots Matthews Correlation Coefficient IPknot: 0.548 HotKnots: 0.179 Sensitivity IPknot: 0.475 HotKnots: 0.051 Positive Predictive Value IPknot: 0.632 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RNASampler(20) Matthews Correlation Coefficient IPknot: 0.548 RNASampler(20): 0.176 Sensitivity IPknot: 0.475 RNASampler(20): 0.035 Positive Predictive Value IPknot: 0.632 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Cylofold Matthews Correlation Coefficient IPknot: 0.548 Cylofold: 0.155 Sensitivity IPknot: 0.475 Cylofold: 0.040 Positive Predictive Value IPknot: 0.632 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Pknots Matthews Correlation Coefficient IPknot: 0.548 Pknots: 0.143 Sensitivity IPknot: 0.475 Pknots: 0.033 Positive Predictive Value IPknot: 0.632 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Mastr(20) Matthews Correlation Coefficient IPknot: 0.548 Mastr(20): 0.134 Sensitivity IPknot: 0.475 Mastr(20): 0.023 Positive Predictive Value IPknot: 0.632 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Alterna Matthews Correlation Coefficient IPknot: 0.548 Alterna: 0.129 Sensitivity IPknot: 0.475 Alterna: 0.030 Positive Predictive Value IPknot: 0.632 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs MCFold Matthews Correlation Coefficient IPknot: 0.548 MCFold: 0.125 Sensitivity IPknot: 0.475 MCFold: 0.036 Positive Predictive Value IPknot: 0.632 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RDfolder Matthews Correlation Coefficient IPknot: 0.548 RDfolder: 0.122 Sensitivity IPknot: 0.475 RDfolder: 0.025 Positive Predictive Value IPknot: 0.632 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Murlet(seed) Matthews Correlation Coefficient IPknot: 0.548 Murlet(seed): 0.079 Sensitivity IPknot: 0.475 Murlet(seed): 0.008 Positive Predictive Value IPknot: 0.632 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs CMfinder(seed) Matthews Correlation Coefficient IPknot: 0.548 CMfinder(seed): 0.080 Sensitivity IPknot: 0.475 CMfinder(seed): 0.008 Positive Predictive Value IPknot: 0.632 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs TurboFold(seed) Matthews Correlation Coefficient IPknot: 0.548 TurboFold(seed): 0.076 Sensitivity IPknot: 0.475 TurboFold(seed): 0.007 Positive Predictive Value IPknot: 0.632 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs PPfold(seed) Matthews Correlation Coefficient IPknot: 0.548 PPfold(seed): 0.069 Sensitivity IPknot: 0.475 PPfold(seed): 0.006 Positive Predictive Value IPknot: 0.632 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Carnac(seed) Matthews Correlation Coefficient IPknot: 0.548 Carnac(seed): 0.066 Sensitivity IPknot: 0.475 Carnac(seed): 0.005 Positive Predictive Value IPknot: 0.632 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RNASampler(seed) Matthews Correlation Coefficient IPknot: 0.548 RNASampler(seed): 0.063 Sensitivity IPknot: 0.475 RNASampler(seed): 0.005 Positive Predictive Value IPknot: 0.632 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs NanoFolder Matthews Correlation Coefficient IPknot: 0.548 NanoFolder: 0.052 Sensitivity IPknot: 0.475 NanoFolder: 0.016 Positive Predictive Value IPknot: 0.632 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Mastr(seed) Matthews Correlation Coefficient IPknot: 0.548 Mastr(seed): 0.051 Sensitivity IPknot: 0.475 Mastr(seed): 0.003 Positive Predictive Value IPknot: 0.632 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Multilign(seed) Matthews Correlation Coefficient IPknot: 0.548 Multilign(seed): 0.043 Sensitivity IPknot: 0.475 Multilign(seed): 0.003 Positive Predictive Value IPknot: 0.632 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
PETfold_pre2.0(seed)	1987 ContextFold vs PETfold_pre2.0(seed) Matthews Correlation Coefficient ContextFold: 0.680 PETfold_pre2.0(seed): 0.529 Sensitivity ContextFold: 0.644 PETfold_pre2.0(seed): 0.343 Positive Predictive Value ContextFold: 0.718 PETfold_pre2.0(seed): 0.814 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs PETfold_pre2.0(seed) Matthews Correlation Coefficient IPknot: 0.548 PETfold_pre2.0(seed): 0.529 Sensitivity IPknot: 0.475 PETfold_pre2.0(seed): 0.343 Positive Predictive Value IPknot: 0.632 PETfold_pre2.0(seed): 0.814 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ PETfold_pre2.0(seed) vs Contrafold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Contrafold: 0.508 Sensitivity PETfold_pre2.0(seed): 0.343 Contrafold: 0.481 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Contrafold: 0.537 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs CentroidFold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 CentroidFold: 0.470 Sensitivity PETfold_pre2.0(seed): 0.343 CentroidFold: 0.369 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CentroidFold: 0.600 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Sfold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Sfold: 0.469 Sensitivity PETfold_pre2.0(seed): 0.343 Sfold: 0.412 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Sfold: 0.535 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs MaxExpect Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 MaxExpect: 0.465 Sensitivity PETfold_pre2.0(seed): 0.343 MaxExpect: 0.443 Positive Predictive Value PETfold_pre2.0(seed): 0.814 MaxExpect: 0.488 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs ProbKnot Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 ProbKnot: 0.460 Sensitivity PETfold_pre2.0(seed): 0.343 ProbKnot: 0.446 Positive Predictive Value PETfold_pre2.0(seed): 0.814 ProbKnot: 0.475 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs UNAFold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 UNAFold: 0.445 Sensitivity PETfold_pre2.0(seed): 0.343 UNAFold: 0.445 Positive Predictive Value PETfold_pre2.0(seed): 0.814 UNAFold: 0.446 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs CentroidAlifold(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 CentroidAlifold(seed): 0.438 Sensitivity PETfold_pre2.0(seed): 0.343 CentroidAlifold(seed): 0.213 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Fold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Fold: 0.437 Sensitivity PETfold_pre2.0(seed): 0.343 Fold: 0.432 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RNAfold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RNAfold: 0.429 Sensitivity PETfold_pre2.0(seed): 0.343 RNAfold: 0.422 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs CentroidHomfold‑LAST Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 CentroidHomfold‑LAST: 0.428 Sensitivity PETfold_pre2.0(seed): 0.343 CentroidHomfold‑LAST: 0.216 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs PETfold_pre2.0(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 PETfold_pre2.0(20): 0.413 Sensitivity PETfold_pre2.0(seed): 0.343 PETfold_pre2.0(20): 0.211 Positive Predictive Value PETfold_pre2.0(seed): 0.814 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs CentroidAlifold(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 CentroidAlifold(20): 0.411 Sensitivity PETfold_pre2.0(seed): 0.343 CentroidAlifold(20): 0.190 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs PknotsRG Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 PknotsRG: 0.386 Sensitivity PETfold_pre2.0(seed): 0.343 PknotsRG: 0.320 Positive Predictive Value PETfold_pre2.0(seed): 0.814 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs MXScarna(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 MXScarna(seed): 0.385 Sensitivity PETfold_pre2.0(seed): 0.343 MXScarna(seed): 0.196 Positive Predictive Value PETfold_pre2.0(seed): 0.814 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RNAalifold(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RNAalifold(20): 0.381 Sensitivity PETfold_pre2.0(seed): 0.343 RNAalifold(20): 0.185 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RNAalifold(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RNAalifold(seed): 0.375 Sensitivity PETfold_pre2.0(seed): 0.343 RNAalifold(seed): 0.169 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Afold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Afold: 0.358 Sensitivity PETfold_pre2.0(seed): 0.343 Afold: 0.295 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs MXScarna(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 MXScarna(20): 0.359 Sensitivity PETfold_pre2.0(seed): 0.343 MXScarna(20): 0.181 Positive Predictive Value PETfold_pre2.0(seed): 0.814 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs CRWrnafold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 CRWrnafold: 0.346 Sensitivity PETfold_pre2.0(seed): 0.343 CRWrnafold: 0.275 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RNAsubopt Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RNAsubopt: 0.336 Sensitivity PETfold_pre2.0(seed): 0.343 RNAsubopt: 0.217 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs McQFold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 McQFold: 0.314 Sensitivity PETfold_pre2.0(seed): 0.343 McQFold: 0.205 Positive Predictive Value PETfold_pre2.0(seed): 0.814 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs TurboFold(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 TurboFold(20): 0.301 Sensitivity PETfold_pre2.0(seed): 0.343 TurboFold(20): 0.108 Positive Predictive Value PETfold_pre2.0(seed): 0.814 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs PPfold(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 PPfold(20): 0.298 Sensitivity PETfold_pre2.0(seed): 0.343 PPfold(20): 0.101 Positive Predictive Value PETfold_pre2.0(seed): 0.814 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RNAshapes Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RNAshapes: 0.295 Sensitivity PETfold_pre2.0(seed): 0.343 RNAshapes: 0.180 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Carnac(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Carnac(20): 0.288 Sensitivity PETfold_pre2.0(seed): 0.343 Carnac(20): 0.093 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RNASLOpt Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RNASLOpt: 0.281 Sensitivity PETfold_pre2.0(seed): 0.343 RNASLOpt: 0.158 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RSpredict(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RSpredict(20): 0.270 Sensitivity PETfold_pre2.0(seed): 0.343 RSpredict(20): 0.124 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Multilign(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Multilign(20): 0.251 Sensitivity PETfold_pre2.0(seed): 0.343 Multilign(20): 0.083 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RNAwolf Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RNAwolf: 0.251 Sensitivity PETfold_pre2.0(seed): 0.343 RNAwolf: 0.191 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Murlet(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Murlet(20): 0.230 Sensitivity PETfold_pre2.0(seed): 0.343 Murlet(20): 0.067 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Vsfold4 Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Vsfold4: 0.217 Sensitivity PETfold_pre2.0(seed): 0.343 Vsfold4: 0.125 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Vsfold5 Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Vsfold5: 0.211 Sensitivity PETfold_pre2.0(seed): 0.343 Vsfold5: 0.125 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RSpredict(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RSpredict(seed): 0.212 Sensitivity PETfold_pre2.0(seed): 0.343 RSpredict(seed): 0.075 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs CMfinder(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 CMfinder(20): 0.210 Sensitivity PETfold_pre2.0(seed): 0.343 CMfinder(20): 0.055 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs HotKnots Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 HotKnots: 0.179 Sensitivity PETfold_pre2.0(seed): 0.343 HotKnots: 0.051 Positive Predictive Value PETfold_pre2.0(seed): 0.814 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RNASampler(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RNASampler(20): 0.176 Sensitivity PETfold_pre2.0(seed): 0.343 RNASampler(20): 0.035 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Cylofold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Cylofold: 0.155 Sensitivity PETfold_pre2.0(seed): 0.343 Cylofold: 0.040 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Pknots Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Pknots: 0.143 Sensitivity PETfold_pre2.0(seed): 0.343 Pknots: 0.033 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Mastr(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Mastr(20): 0.134 Sensitivity PETfold_pre2.0(seed): 0.343 Mastr(20): 0.023 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Alterna Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Alterna: 0.129 Sensitivity PETfold_pre2.0(seed): 0.343 Alterna: 0.030 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs MCFold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 MCFold: 0.125 Sensitivity PETfold_pre2.0(seed): 0.343 MCFold: 0.036 Positive Predictive Value PETfold_pre2.0(seed): 0.814 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RDfolder Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RDfolder: 0.122 Sensitivity PETfold_pre2.0(seed): 0.343 RDfolder: 0.025 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Murlet(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Murlet(seed): 0.079 Sensitivity PETfold_pre2.0(seed): 0.343 Murlet(seed): 0.008 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs CMfinder(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 CMfinder(seed): 0.080 Sensitivity PETfold_pre2.0(seed): 0.343 CMfinder(seed): 0.008 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs TurboFold(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 TurboFold(seed): 0.076 Sensitivity PETfold_pre2.0(seed): 0.343 TurboFold(seed): 0.007 Positive Predictive Value PETfold_pre2.0(seed): 0.814 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs PPfold(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 PPfold(seed): 0.069 Sensitivity PETfold_pre2.0(seed): 0.343 PPfold(seed): 0.006 Positive Predictive Value PETfold_pre2.0(seed): 0.814 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Carnac(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Carnac(seed): 0.066 Sensitivity PETfold_pre2.0(seed): 0.343 Carnac(seed): 0.005 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RNASampler(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RNASampler(seed): 0.063 Sensitivity PETfold_pre2.0(seed): 0.343 RNASampler(seed): 0.005 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs NanoFolder Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 NanoFolder: 0.052 Sensitivity PETfold_pre2.0(seed): 0.343 NanoFolder: 0.016 Positive Predictive Value PETfold_pre2.0(seed): 0.814 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Mastr(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Mastr(seed): 0.051 Sensitivity PETfold_pre2.0(seed): 0.343 Mastr(seed): 0.003 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Multilign(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Multilign(seed): 0.043 Sensitivity PETfold_pre2.0(seed): 0.343 Multilign(seed): 0.003 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
Contrafold	1987 ContextFold vs Contrafold Matthews Correlation Coefficient ContextFold: 0.680 Contrafold: 0.508 Sensitivity ContextFold: 0.644 Contrafold: 0.481 Positive Predictive Value ContextFold: 0.718 Contrafold: 0.537 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs Contrafold Matthews Correlation Coefficient IPknot: 0.548 Contrafold: 0.508 Sensitivity IPknot: 0.475 Contrafold: 0.481 Positive Predictive Value IPknot: 0.632 Contrafold: 0.537 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs Contrafold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Contrafold: 0.508 Sensitivity PETfold_pre2.0(seed): 0.343 Contrafold: 0.481 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Contrafold: 0.537 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ Contrafold vs CentroidFold Matthews Correlation Coefficient Contrafold: 0.508 CentroidFold: 0.470 Sensitivity Contrafold: 0.481 CentroidFold: 0.369 Positive Predictive Value Contrafold: 0.537 CentroidFold: 0.600 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Sfold Matthews Correlation Coefficient Contrafold: 0.508 Sfold: 0.469 Sensitivity Contrafold: 0.481 Sfold: 0.412 Positive Predictive Value Contrafold: 0.537 Sfold: 0.535 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs MaxExpect Matthews Correlation Coefficient Contrafold: 0.508 MaxExpect: 0.465 Sensitivity Contrafold: 0.481 MaxExpect: 0.443 Positive Predictive Value Contrafold: 0.537 MaxExpect: 0.488 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs ProbKnot Matthews Correlation Coefficient Contrafold: 0.508 ProbKnot: 0.460 Sensitivity Contrafold: 0.481 ProbKnot: 0.446 Positive Predictive Value Contrafold: 0.537 ProbKnot: 0.475 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs UNAFold Matthews Correlation Coefficient Contrafold: 0.508 UNAFold: 0.445 Sensitivity Contrafold: 0.481 UNAFold: 0.445 Positive Predictive Value Contrafold: 0.537 UNAFold: 0.446 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs CentroidAlifold(seed) Matthews Correlation Coefficient Contrafold: 0.508 CentroidAlifold(seed): 0.438 Sensitivity Contrafold: 0.481 CentroidAlifold(seed): 0.213 Positive Predictive Value Contrafold: 0.537 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Fold Matthews Correlation Coefficient Contrafold: 0.508 Fold: 0.437 Sensitivity Contrafold: 0.481 Fold: 0.432 Positive Predictive Value Contrafold: 0.537 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RNAfold Matthews Correlation Coefficient Contrafold: 0.508 RNAfold: 0.429 Sensitivity Contrafold: 0.481 RNAfold: 0.422 Positive Predictive Value Contrafold: 0.537 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs CentroidHomfold‑LAST Matthews Correlation Coefficient Contrafold: 0.508 CentroidHomfold‑LAST: 0.428 Sensitivity Contrafold: 0.481 CentroidHomfold‑LAST: 0.216 Positive Predictive Value Contrafold: 0.537 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs PETfold_pre2.0(20) Matthews Correlation Coefficient Contrafold: 0.508 PETfold_pre2.0(20): 0.413 Sensitivity Contrafold: 0.481 PETfold_pre2.0(20): 0.211 Positive Predictive Value Contrafold: 0.537 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs CentroidAlifold(20) Matthews Correlation Coefficient Contrafold: 0.508 CentroidAlifold(20): 0.411 Sensitivity Contrafold: 0.481 CentroidAlifold(20): 0.190 Positive Predictive Value Contrafold: 0.537 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs PknotsRG Matthews Correlation Coefficient Contrafold: 0.508 PknotsRG: 0.386 Sensitivity Contrafold: 0.481 PknotsRG: 0.320 Positive Predictive Value Contrafold: 0.537 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs MXScarna(seed) Matthews Correlation Coefficient Contrafold: 0.508 MXScarna(seed): 0.385 Sensitivity Contrafold: 0.481 MXScarna(seed): 0.196 Positive Predictive Value Contrafold: 0.537 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RNAalifold(20) Matthews Correlation Coefficient Contrafold: 0.508 RNAalifold(20): 0.381 Sensitivity Contrafold: 0.481 RNAalifold(20): 0.185 Positive Predictive Value Contrafold: 0.537 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RNAalifold(seed) Matthews Correlation Coefficient Contrafold: 0.508 RNAalifold(seed): 0.375 Sensitivity Contrafold: 0.481 RNAalifold(seed): 0.169 Positive Predictive Value Contrafold: 0.537 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Afold Matthews Correlation Coefficient Contrafold: 0.508 Afold: 0.358 Sensitivity Contrafold: 0.481 Afold: 0.295 Positive Predictive Value Contrafold: 0.537 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs MXScarna(20) Matthews Correlation Coefficient Contrafold: 0.508 MXScarna(20): 0.359 Sensitivity Contrafold: 0.481 MXScarna(20): 0.181 Positive Predictive Value Contrafold: 0.537 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs CRWrnafold Matthews Correlation Coefficient Contrafold: 0.508 CRWrnafold: 0.346 Sensitivity Contrafold: 0.481 CRWrnafold: 0.275 Positive Predictive Value Contrafold: 0.537 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RNAsubopt Matthews Correlation Coefficient Contrafold: 0.508 RNAsubopt: 0.336 Sensitivity Contrafold: 0.481 RNAsubopt: 0.217 Positive Predictive Value Contrafold: 0.537 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs McQFold Matthews Correlation Coefficient Contrafold: 0.508 McQFold: 0.314 Sensitivity Contrafold: 0.481 McQFold: 0.205 Positive Predictive Value Contrafold: 0.537 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs TurboFold(20) Matthews Correlation Coefficient Contrafold: 0.508 TurboFold(20): 0.301 Sensitivity Contrafold: 0.481 TurboFold(20): 0.108 Positive Predictive Value Contrafold: 0.537 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs PPfold(20) Matthews Correlation Coefficient Contrafold: 0.508 PPfold(20): 0.298 Sensitivity Contrafold: 0.481 PPfold(20): 0.101 Positive Predictive Value Contrafold: 0.537 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RNAshapes Matthews Correlation Coefficient Contrafold: 0.508 RNAshapes: 0.295 Sensitivity Contrafold: 0.481 RNAshapes: 0.180 Positive Predictive Value Contrafold: 0.537 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Carnac(20) Matthews Correlation Coefficient Contrafold: 0.508 Carnac(20): 0.288 Sensitivity Contrafold: 0.481 Carnac(20): 0.093 Positive Predictive Value Contrafold: 0.537 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RNASLOpt Matthews Correlation Coefficient Contrafold: 0.508 RNASLOpt: 0.281 Sensitivity Contrafold: 0.481 RNASLOpt: 0.158 Positive Predictive Value Contrafold: 0.537 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RSpredict(20) Matthews Correlation Coefficient Contrafold: 0.508 RSpredict(20): 0.270 Sensitivity Contrafold: 0.481 RSpredict(20): 0.124 Positive Predictive Value Contrafold: 0.537 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Multilign(20) Matthews Correlation Coefficient Contrafold: 0.508 Multilign(20): 0.251 Sensitivity Contrafold: 0.481 Multilign(20): 0.083 Positive Predictive Value Contrafold: 0.537 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RNAwolf Matthews Correlation Coefficient Contrafold: 0.508 RNAwolf: 0.251 Sensitivity Contrafold: 0.481 RNAwolf: 0.191 Positive Predictive Value Contrafold: 0.537 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Murlet(20) Matthews Correlation Coefficient Contrafold: 0.508 Murlet(20): 0.230 Sensitivity Contrafold: 0.481 Murlet(20): 0.067 Positive Predictive Value Contrafold: 0.537 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Vsfold4 Matthews Correlation Coefficient Contrafold: 0.508 Vsfold4: 0.217 Sensitivity Contrafold: 0.481 Vsfold4: 0.125 Positive Predictive Value Contrafold: 0.537 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Vsfold5 Matthews Correlation Coefficient Contrafold: 0.508 Vsfold5: 0.211 Sensitivity Contrafold: 0.481 Vsfold5: 0.125 Positive Predictive Value Contrafold: 0.537 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RSpredict(seed) Matthews Correlation Coefficient Contrafold: 0.508 RSpredict(seed): 0.212 Sensitivity Contrafold: 0.481 RSpredict(seed): 0.075 Positive Predictive Value Contrafold: 0.537 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs CMfinder(20) Matthews Correlation Coefficient Contrafold: 0.508 CMfinder(20): 0.210 Sensitivity Contrafold: 0.481 CMfinder(20): 0.055 Positive Predictive Value Contrafold: 0.537 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs HotKnots Matthews Correlation Coefficient Contrafold: 0.508 HotKnots: 0.179 Sensitivity Contrafold: 0.481 HotKnots: 0.051 Positive Predictive Value Contrafold: 0.537 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RNASampler(20) Matthews Correlation Coefficient Contrafold: 0.508 RNASampler(20): 0.176 Sensitivity Contrafold: 0.481 RNASampler(20): 0.035 Positive Predictive Value Contrafold: 0.537 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Cylofold Matthews Correlation Coefficient Contrafold: 0.508 Cylofold: 0.155 Sensitivity Contrafold: 0.481 Cylofold: 0.040 Positive Predictive Value Contrafold: 0.537 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Pknots Matthews Correlation Coefficient Contrafold: 0.508 Pknots: 0.143 Sensitivity Contrafold: 0.481 Pknots: 0.033 Positive Predictive Value Contrafold: 0.537 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Mastr(20) Matthews Correlation Coefficient Contrafold: 0.508 Mastr(20): 0.134 Sensitivity Contrafold: 0.481 Mastr(20): 0.023 Positive Predictive Value Contrafold: 0.537 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Alterna Matthews Correlation Coefficient Contrafold: 0.508 Alterna: 0.129 Sensitivity Contrafold: 0.481 Alterna: 0.030 Positive Predictive Value Contrafold: 0.537 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs MCFold Matthews Correlation Coefficient Contrafold: 0.508 MCFold: 0.125 Sensitivity Contrafold: 0.481 MCFold: 0.036 Positive Predictive Value Contrafold: 0.537 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RDfolder Matthews Correlation Coefficient Contrafold: 0.508 RDfolder: 0.122 Sensitivity Contrafold: 0.481 RDfolder: 0.025 Positive Predictive Value Contrafold: 0.537 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Murlet(seed) Matthews Correlation Coefficient Contrafold: 0.508 Murlet(seed): 0.079 Sensitivity Contrafold: 0.481 Murlet(seed): 0.008 Positive Predictive Value Contrafold: 0.537 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs CMfinder(seed) Matthews Correlation Coefficient Contrafold: 0.508 CMfinder(seed): 0.080 Sensitivity Contrafold: 0.481 CMfinder(seed): 0.008 Positive Predictive Value Contrafold: 0.537 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs TurboFold(seed) Matthews Correlation Coefficient Contrafold: 0.508 TurboFold(seed): 0.076 Sensitivity Contrafold: 0.481 TurboFold(seed): 0.007 Positive Predictive Value Contrafold: 0.537 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs PPfold(seed) Matthews Correlation Coefficient Contrafold: 0.508 PPfold(seed): 0.069 Sensitivity Contrafold: 0.481 PPfold(seed): 0.006 Positive Predictive Value Contrafold: 0.537 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Carnac(seed) Matthews Correlation Coefficient Contrafold: 0.508 Carnac(seed): 0.066 Sensitivity Contrafold: 0.481 Carnac(seed): 0.005 Positive Predictive Value Contrafold: 0.537 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RNASampler(seed) Matthews Correlation Coefficient Contrafold: 0.508 RNASampler(seed): 0.063 Sensitivity Contrafold: 0.481 RNASampler(seed): 0.005 Positive Predictive Value Contrafold: 0.537 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs NanoFolder Matthews Correlation Coefficient Contrafold: 0.508 NanoFolder: 0.052 Sensitivity Contrafold: 0.481 NanoFolder: 0.016 Positive Predictive Value Contrafold: 0.537 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Mastr(seed) Matthews Correlation Coefficient Contrafold: 0.508 Mastr(seed): 0.051 Sensitivity Contrafold: 0.481 Mastr(seed): 0.003 Positive Predictive Value Contrafold: 0.537 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Multilign(seed) Matthews Correlation Coefficient Contrafold: 0.508 Multilign(seed): 0.043 Sensitivity Contrafold: 0.481 Multilign(seed): 0.003 Positive Predictive Value Contrafold: 0.537 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
CentroidFold	1987 ContextFold vs CentroidFold Matthews Correlation Coefficient ContextFold: 0.680 CentroidFold: 0.470 Sensitivity ContextFold: 0.644 CentroidFold: 0.369 Positive Predictive Value ContextFold: 0.718 CentroidFold: 0.600 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs CentroidFold Matthews Correlation Coefficient IPknot: 0.548 CentroidFold: 0.470 Sensitivity IPknot: 0.475 CentroidFold: 0.369 Positive Predictive Value IPknot: 0.632 CentroidFold: 0.600 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs CentroidFold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 CentroidFold: 0.470 Sensitivity PETfold_pre2.0(seed): 0.343 CentroidFold: 0.369 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CentroidFold: 0.600 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs CentroidFold Matthews Correlation Coefficient Contrafold: 0.508 CentroidFold: 0.470 Sensitivity Contrafold: 0.481 CentroidFold: 0.369 Positive Predictive Value Contrafold: 0.537 CentroidFold: 0.600 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ CentroidFold vs Sfold Matthews Correlation Coefficient CentroidFold: 0.470 Sfold: 0.469 Sensitivity CentroidFold: 0.369 Sfold: 0.412 Positive Predictive Value CentroidFold: 0.600 Sfold: 0.535 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.000451186043411	+ CentroidFold vs MaxExpect Matthews Correlation Coefficient CentroidFold: 0.470 MaxExpect: 0.465 Sensitivity CentroidFold: 0.369 MaxExpect: 0.443 Positive Predictive Value CentroidFold: 0.600 MaxExpect: 0.488 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs ProbKnot Matthews Correlation Coefficient CentroidFold: 0.470 ProbKnot: 0.460 Sensitivity CentroidFold: 0.369 ProbKnot: 0.446 Positive Predictive Value CentroidFold: 0.600 ProbKnot: 0.475 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs UNAFold Matthews Correlation Coefficient CentroidFold: 0.470 UNAFold: 0.445 Sensitivity CentroidFold: 0.369 UNAFold: 0.445 Positive Predictive Value CentroidFold: 0.600 UNAFold: 0.446 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs CentroidAlifold(seed) Matthews Correlation Coefficient CentroidFold: 0.470 CentroidAlifold(seed): 0.438 Sensitivity CentroidFold: 0.369 CentroidAlifold(seed): 0.213 Positive Predictive Value CentroidFold: 0.600 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Fold Matthews Correlation Coefficient CentroidFold: 0.470 Fold: 0.437 Sensitivity CentroidFold: 0.369 Fold: 0.432 Positive Predictive Value CentroidFold: 0.600 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RNAfold Matthews Correlation Coefficient CentroidFold: 0.470 RNAfold: 0.429 Sensitivity CentroidFold: 0.369 RNAfold: 0.422 Positive Predictive Value CentroidFold: 0.600 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs CentroidHomfold‑LAST Matthews Correlation Coefficient CentroidFold: 0.470 CentroidHomfold‑LAST: 0.428 Sensitivity CentroidFold: 0.369 CentroidHomfold‑LAST: 0.216 Positive Predictive Value CentroidFold: 0.600 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs PETfold_pre2.0(20) Matthews Correlation Coefficient CentroidFold: 0.470 PETfold_pre2.0(20): 0.413 Sensitivity CentroidFold: 0.369 PETfold_pre2.0(20): 0.211 Positive Predictive Value CentroidFold: 0.600 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs CentroidAlifold(20) Matthews Correlation Coefficient CentroidFold: 0.470 CentroidAlifold(20): 0.411 Sensitivity CentroidFold: 0.369 CentroidAlifold(20): 0.190 Positive Predictive Value CentroidFold: 0.600 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs PknotsRG Matthews Correlation Coefficient CentroidFold: 0.470 PknotsRG: 0.386 Sensitivity CentroidFold: 0.369 PknotsRG: 0.320 Positive Predictive Value CentroidFold: 0.600 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs MXScarna(seed) Matthews Correlation Coefficient CentroidFold: 0.470 MXScarna(seed): 0.385 Sensitivity CentroidFold: 0.369 MXScarna(seed): 0.196 Positive Predictive Value CentroidFold: 0.600 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RNAalifold(20) Matthews Correlation Coefficient CentroidFold: 0.470 RNAalifold(20): 0.381 Sensitivity CentroidFold: 0.369 RNAalifold(20): 0.185 Positive Predictive Value CentroidFold: 0.600 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RNAalifold(seed) Matthews Correlation Coefficient CentroidFold: 0.470 RNAalifold(seed): 0.375 Sensitivity CentroidFold: 0.369 RNAalifold(seed): 0.169 Positive Predictive Value CentroidFold: 0.600 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Afold Matthews Correlation Coefficient CentroidFold: 0.470 Afold: 0.358 Sensitivity CentroidFold: 0.369 Afold: 0.295 Positive Predictive Value CentroidFold: 0.600 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs MXScarna(20) Matthews Correlation Coefficient CentroidFold: 0.470 MXScarna(20): 0.359 Sensitivity CentroidFold: 0.369 MXScarna(20): 0.181 Positive Predictive Value CentroidFold: 0.600 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs CRWrnafold Matthews Correlation Coefficient CentroidFold: 0.470 CRWrnafold: 0.346 Sensitivity CentroidFold: 0.369 CRWrnafold: 0.275 Positive Predictive Value CentroidFold: 0.600 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RNAsubopt Matthews Correlation Coefficient CentroidFold: 0.470 RNAsubopt: 0.336 Sensitivity CentroidFold: 0.369 RNAsubopt: 0.217 Positive Predictive Value CentroidFold: 0.600 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs McQFold Matthews Correlation Coefficient CentroidFold: 0.470 McQFold: 0.314 Sensitivity CentroidFold: 0.369 McQFold: 0.205 Positive Predictive Value CentroidFold: 0.600 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs TurboFold(20) Matthews Correlation Coefficient CentroidFold: 0.470 TurboFold(20): 0.301 Sensitivity CentroidFold: 0.369 TurboFold(20): 0.108 Positive Predictive Value CentroidFold: 0.600 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs PPfold(20) Matthews Correlation Coefficient CentroidFold: 0.470 PPfold(20): 0.298 Sensitivity CentroidFold: 0.369 PPfold(20): 0.101 Positive Predictive Value CentroidFold: 0.600 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RNAshapes Matthews Correlation Coefficient CentroidFold: 0.470 RNAshapes: 0.295 Sensitivity CentroidFold: 0.369 RNAshapes: 0.180 Positive Predictive Value CentroidFold: 0.600 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Carnac(20) Matthews Correlation Coefficient CentroidFold: 0.470 Carnac(20): 0.288 Sensitivity CentroidFold: 0.369 Carnac(20): 0.093 Positive Predictive Value CentroidFold: 0.600 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RNASLOpt Matthews Correlation Coefficient CentroidFold: 0.470 RNASLOpt: 0.281 Sensitivity CentroidFold: 0.369 RNASLOpt: 0.158 Positive Predictive Value CentroidFold: 0.600 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RSpredict(20) Matthews Correlation Coefficient CentroidFold: 0.470 RSpredict(20): 0.270 Sensitivity CentroidFold: 0.369 RSpredict(20): 0.124 Positive Predictive Value CentroidFold: 0.600 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Multilign(20) Matthews Correlation Coefficient CentroidFold: 0.470 Multilign(20): 0.251 Sensitivity CentroidFold: 0.369 Multilign(20): 0.083 Positive Predictive Value CentroidFold: 0.600 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RNAwolf Matthews Correlation Coefficient CentroidFold: 0.470 RNAwolf: 0.251 Sensitivity CentroidFold: 0.369 RNAwolf: 0.191 Positive Predictive Value CentroidFold: 0.600 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Murlet(20) Matthews Correlation Coefficient CentroidFold: 0.470 Murlet(20): 0.230 Sensitivity CentroidFold: 0.369 Murlet(20): 0.067 Positive Predictive Value CentroidFold: 0.600 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Vsfold4 Matthews Correlation Coefficient CentroidFold: 0.470 Vsfold4: 0.217 Sensitivity CentroidFold: 0.369 Vsfold4: 0.125 Positive Predictive Value CentroidFold: 0.600 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Vsfold5 Matthews Correlation Coefficient CentroidFold: 0.470 Vsfold5: 0.211 Sensitivity CentroidFold: 0.369 Vsfold5: 0.125 Positive Predictive Value CentroidFold: 0.600 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RSpredict(seed) Matthews Correlation Coefficient CentroidFold: 0.470 RSpredict(seed): 0.212 Sensitivity CentroidFold: 0.369 RSpredict(seed): 0.075 Positive Predictive Value CentroidFold: 0.600 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs CMfinder(20) Matthews Correlation Coefficient CentroidFold: 0.470 CMfinder(20): 0.210 Sensitivity CentroidFold: 0.369 CMfinder(20): 0.055 Positive Predictive Value CentroidFold: 0.600 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs HotKnots Matthews Correlation Coefficient CentroidFold: 0.470 HotKnots: 0.179 Sensitivity CentroidFold: 0.369 HotKnots: 0.051 Positive Predictive Value CentroidFold: 0.600 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RNASampler(20) Matthews Correlation Coefficient CentroidFold: 0.470 RNASampler(20): 0.176 Sensitivity CentroidFold: 0.369 RNASampler(20): 0.035 Positive Predictive Value CentroidFold: 0.600 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Cylofold Matthews Correlation Coefficient CentroidFold: 0.470 Cylofold: 0.155 Sensitivity CentroidFold: 0.369 Cylofold: 0.040 Positive Predictive Value CentroidFold: 0.600 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Pknots Matthews Correlation Coefficient CentroidFold: 0.470 Pknots: 0.143 Sensitivity CentroidFold: 0.369 Pknots: 0.033 Positive Predictive Value CentroidFold: 0.600 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Mastr(20) Matthews Correlation Coefficient CentroidFold: 0.470 Mastr(20): 0.134 Sensitivity CentroidFold: 0.369 Mastr(20): 0.023 Positive Predictive Value CentroidFold: 0.600 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Alterna Matthews Correlation Coefficient CentroidFold: 0.470 Alterna: 0.129 Sensitivity CentroidFold: 0.369 Alterna: 0.030 Positive Predictive Value CentroidFold: 0.600 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs MCFold Matthews Correlation Coefficient CentroidFold: 0.470 MCFold: 0.125 Sensitivity CentroidFold: 0.369 MCFold: 0.036 Positive Predictive Value CentroidFold: 0.600 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RDfolder Matthews Correlation Coefficient CentroidFold: 0.470 RDfolder: 0.122 Sensitivity CentroidFold: 0.369 RDfolder: 0.025 Positive Predictive Value CentroidFold: 0.600 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Murlet(seed) Matthews Correlation Coefficient CentroidFold: 0.470 Murlet(seed): 0.079 Sensitivity CentroidFold: 0.369 Murlet(seed): 0.008 Positive Predictive Value CentroidFold: 0.600 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs CMfinder(seed) Matthews Correlation Coefficient CentroidFold: 0.470 CMfinder(seed): 0.080 Sensitivity CentroidFold: 0.369 CMfinder(seed): 0.008 Positive Predictive Value CentroidFold: 0.600 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs TurboFold(seed) Matthews Correlation Coefficient CentroidFold: 0.470 TurboFold(seed): 0.076 Sensitivity CentroidFold: 0.369 TurboFold(seed): 0.007 Positive Predictive Value CentroidFold: 0.600 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs PPfold(seed) Matthews Correlation Coefficient CentroidFold: 0.470 PPfold(seed): 0.069 Sensitivity CentroidFold: 0.369 PPfold(seed): 0.006 Positive Predictive Value CentroidFold: 0.600 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Carnac(seed) Matthews Correlation Coefficient CentroidFold: 0.470 Carnac(seed): 0.066 Sensitivity CentroidFold: 0.369 Carnac(seed): 0.005 Positive Predictive Value CentroidFold: 0.600 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RNASampler(seed) Matthews Correlation Coefficient CentroidFold: 0.470 RNASampler(seed): 0.063 Sensitivity CentroidFold: 0.369 RNASampler(seed): 0.005 Positive Predictive Value CentroidFold: 0.600 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs NanoFolder Matthews Correlation Coefficient CentroidFold: 0.470 NanoFolder: 0.052 Sensitivity CentroidFold: 0.369 NanoFolder: 0.016 Positive Predictive Value CentroidFold: 0.600 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Mastr(seed) Matthews Correlation Coefficient CentroidFold: 0.470 Mastr(seed): 0.051 Sensitivity CentroidFold: 0.369 Mastr(seed): 0.003 Positive Predictive Value CentroidFold: 0.600 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Multilign(seed) Matthews Correlation Coefficient CentroidFold: 0.470 Multilign(seed): 0.043 Sensitivity CentroidFold: 0.369 Multilign(seed): 0.003 Positive Predictive Value CentroidFold: 0.600 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
Sfold	1987 ContextFold vs Sfold Matthews Correlation Coefficient ContextFold: 0.680 Sfold: 0.469 Sensitivity ContextFold: 0.644 Sfold: 0.412 Positive Predictive Value ContextFold: 0.718 Sfold: 0.535 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs Sfold Matthews Correlation Coefficient IPknot: 0.548 Sfold: 0.469 Sensitivity IPknot: 0.475 Sfold: 0.412 Positive Predictive Value IPknot: 0.632 Sfold: 0.535 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs Sfold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Sfold: 0.469 Sensitivity PETfold_pre2.0(seed): 0.343 Sfold: 0.412 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Sfold: 0.535 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs Sfold Matthews Correlation Coefficient Contrafold: 0.508 Sfold: 0.469 Sensitivity Contrafold: 0.481 Sfold: 0.412 Positive Predictive Value Contrafold: 0.537 Sfold: 0.535 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs Sfold Matthews Correlation Coefficient CentroidFold: 0.470 Sfold: 0.469 Sensitivity CentroidFold: 0.369 Sfold: 0.412 Positive Predictive Value CentroidFold: 0.600 Sfold: 0.535 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.000451186043411		+ Sfold vs MaxExpect Matthews Correlation Coefficient Sfold: 0.469 MaxExpect: 0.465 Sensitivity Sfold: 0.412 MaxExpect: 0.443 Positive Predictive Value Sfold: 0.535 MaxExpect: 0.488 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs ProbKnot Matthews Correlation Coefficient Sfold: 0.469 ProbKnot: 0.460 Sensitivity Sfold: 0.412 ProbKnot: 0.446 Positive Predictive Value Sfold: 0.535 ProbKnot: 0.475 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs UNAFold Matthews Correlation Coefficient Sfold: 0.469 UNAFold: 0.445 Sensitivity Sfold: 0.412 UNAFold: 0.445 Positive Predictive Value Sfold: 0.535 UNAFold: 0.446 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs CentroidAlifold(seed) Matthews Correlation Coefficient Sfold: 0.469 CentroidAlifold(seed): 0.438 Sensitivity Sfold: 0.412 CentroidAlifold(seed): 0.213 Positive Predictive Value Sfold: 0.535 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Fold Matthews Correlation Coefficient Sfold: 0.469 Fold: 0.437 Sensitivity Sfold: 0.412 Fold: 0.432 Positive Predictive Value Sfold: 0.535 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RNAfold Matthews Correlation Coefficient Sfold: 0.469 RNAfold: 0.429 Sensitivity Sfold: 0.412 RNAfold: 0.422 Positive Predictive Value Sfold: 0.535 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs CentroidHomfold‑LAST Matthews Correlation Coefficient Sfold: 0.469 CentroidHomfold‑LAST: 0.428 Sensitivity Sfold: 0.412 CentroidHomfold‑LAST: 0.216 Positive Predictive Value Sfold: 0.535 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs PETfold_pre2.0(20) Matthews Correlation Coefficient Sfold: 0.469 PETfold_pre2.0(20): 0.413 Sensitivity Sfold: 0.412 PETfold_pre2.0(20): 0.211 Positive Predictive Value Sfold: 0.535 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs CentroidAlifold(20) Matthews Correlation Coefficient Sfold: 0.469 CentroidAlifold(20): 0.411 Sensitivity Sfold: 0.412 CentroidAlifold(20): 0.190 Positive Predictive Value Sfold: 0.535 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs PknotsRG Matthews Correlation Coefficient Sfold: 0.469 PknotsRG: 0.386 Sensitivity Sfold: 0.412 PknotsRG: 0.320 Positive Predictive Value Sfold: 0.535 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs MXScarna(seed) Matthews Correlation Coefficient Sfold: 0.469 MXScarna(seed): 0.385 Sensitivity Sfold: 0.412 MXScarna(seed): 0.196 Positive Predictive Value Sfold: 0.535 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RNAalifold(20) Matthews Correlation Coefficient Sfold: 0.469 RNAalifold(20): 0.381 Sensitivity Sfold: 0.412 RNAalifold(20): 0.185 Positive Predictive Value Sfold: 0.535 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RNAalifold(seed) Matthews Correlation Coefficient Sfold: 0.469 RNAalifold(seed): 0.375 Sensitivity Sfold: 0.412 RNAalifold(seed): 0.169 Positive Predictive Value Sfold: 0.535 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Afold Matthews Correlation Coefficient Sfold: 0.469 Afold: 0.358 Sensitivity Sfold: 0.412 Afold: 0.295 Positive Predictive Value Sfold: 0.535 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs MXScarna(20) Matthews Correlation Coefficient Sfold: 0.469 MXScarna(20): 0.359 Sensitivity Sfold: 0.412 MXScarna(20): 0.181 Positive Predictive Value Sfold: 0.535 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs CRWrnafold Matthews Correlation Coefficient Sfold: 0.469 CRWrnafold: 0.346 Sensitivity Sfold: 0.412 CRWrnafold: 0.275 Positive Predictive Value Sfold: 0.535 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RNAsubopt Matthews Correlation Coefficient Sfold: 0.469 RNAsubopt: 0.336 Sensitivity Sfold: 0.412 RNAsubopt: 0.217 Positive Predictive Value Sfold: 0.535 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs McQFold Matthews Correlation Coefficient Sfold: 0.469 McQFold: 0.314 Sensitivity Sfold: 0.412 McQFold: 0.205 Positive Predictive Value Sfold: 0.535 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs TurboFold(20) Matthews Correlation Coefficient Sfold: 0.469 TurboFold(20): 0.301 Sensitivity Sfold: 0.412 TurboFold(20): 0.108 Positive Predictive Value Sfold: 0.535 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs PPfold(20) Matthews Correlation Coefficient Sfold: 0.469 PPfold(20): 0.298 Sensitivity Sfold: 0.412 PPfold(20): 0.101 Positive Predictive Value Sfold: 0.535 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RNAshapes Matthews Correlation Coefficient Sfold: 0.469 RNAshapes: 0.295 Sensitivity Sfold: 0.412 RNAshapes: 0.180 Positive Predictive Value Sfold: 0.535 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Carnac(20) Matthews Correlation Coefficient Sfold: 0.469 Carnac(20): 0.288 Sensitivity Sfold: 0.412 Carnac(20): 0.093 Positive Predictive Value Sfold: 0.535 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RNASLOpt Matthews Correlation Coefficient Sfold: 0.469 RNASLOpt: 0.281 Sensitivity Sfold: 0.412 RNASLOpt: 0.158 Positive Predictive Value Sfold: 0.535 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RSpredict(20) Matthews Correlation Coefficient Sfold: 0.469 RSpredict(20): 0.270 Sensitivity Sfold: 0.412 RSpredict(20): 0.124 Positive Predictive Value Sfold: 0.535 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Multilign(20) Matthews Correlation Coefficient Sfold: 0.469 Multilign(20): 0.251 Sensitivity Sfold: 0.412 Multilign(20): 0.083 Positive Predictive Value Sfold: 0.535 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RNAwolf Matthews Correlation Coefficient Sfold: 0.469 RNAwolf: 0.251 Sensitivity Sfold: 0.412 RNAwolf: 0.191 Positive Predictive Value Sfold: 0.535 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Murlet(20) Matthews Correlation Coefficient Sfold: 0.469 Murlet(20): 0.230 Sensitivity Sfold: 0.412 Murlet(20): 0.067 Positive Predictive Value Sfold: 0.535 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Vsfold4 Matthews Correlation Coefficient Sfold: 0.469 Vsfold4: 0.217 Sensitivity Sfold: 0.412 Vsfold4: 0.125 Positive Predictive Value Sfold: 0.535 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Vsfold5 Matthews Correlation Coefficient Sfold: 0.469 Vsfold5: 0.211 Sensitivity Sfold: 0.412 Vsfold5: 0.125 Positive Predictive Value Sfold: 0.535 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RSpredict(seed) Matthews Correlation Coefficient Sfold: 0.469 RSpredict(seed): 0.212 Sensitivity Sfold: 0.412 RSpredict(seed): 0.075 Positive Predictive Value Sfold: 0.535 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs CMfinder(20) Matthews Correlation Coefficient Sfold: 0.469 CMfinder(20): 0.210 Sensitivity Sfold: 0.412 CMfinder(20): 0.055 Positive Predictive Value Sfold: 0.535 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs HotKnots Matthews Correlation Coefficient Sfold: 0.469 HotKnots: 0.179 Sensitivity Sfold: 0.412 HotKnots: 0.051 Positive Predictive Value Sfold: 0.535 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RNASampler(20) Matthews Correlation Coefficient Sfold: 0.469 RNASampler(20): 0.176 Sensitivity Sfold: 0.412 RNASampler(20): 0.035 Positive Predictive Value Sfold: 0.535 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Cylofold Matthews Correlation Coefficient Sfold: 0.469 Cylofold: 0.155 Sensitivity Sfold: 0.412 Cylofold: 0.040 Positive Predictive Value Sfold: 0.535 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Pknots Matthews Correlation Coefficient Sfold: 0.469 Pknots: 0.143 Sensitivity Sfold: 0.412 Pknots: 0.033 Positive Predictive Value Sfold: 0.535 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Mastr(20) Matthews Correlation Coefficient Sfold: 0.469 Mastr(20): 0.134 Sensitivity Sfold: 0.412 Mastr(20): 0.023 Positive Predictive Value Sfold: 0.535 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Alterna Matthews Correlation Coefficient Sfold: 0.469 Alterna: 0.129 Sensitivity Sfold: 0.412 Alterna: 0.030 Positive Predictive Value Sfold: 0.535 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs MCFold Matthews Correlation Coefficient Sfold: 0.469 MCFold: 0.125 Sensitivity Sfold: 0.412 MCFold: 0.036 Positive Predictive Value Sfold: 0.535 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RDfolder Matthews Correlation Coefficient Sfold: 0.469 RDfolder: 0.122 Sensitivity Sfold: 0.412 RDfolder: 0.025 Positive Predictive Value Sfold: 0.535 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Murlet(seed) Matthews Correlation Coefficient Sfold: 0.469 Murlet(seed): 0.079 Sensitivity Sfold: 0.412 Murlet(seed): 0.008 Positive Predictive Value Sfold: 0.535 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs CMfinder(seed) Matthews Correlation Coefficient Sfold: 0.469 CMfinder(seed): 0.080 Sensitivity Sfold: 0.412 CMfinder(seed): 0.008 Positive Predictive Value Sfold: 0.535 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs TurboFold(seed) Matthews Correlation Coefficient Sfold: 0.469 TurboFold(seed): 0.076 Sensitivity Sfold: 0.412 TurboFold(seed): 0.007 Positive Predictive Value Sfold: 0.535 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs PPfold(seed) Matthews Correlation Coefficient Sfold: 0.469 PPfold(seed): 0.069 Sensitivity Sfold: 0.412 PPfold(seed): 0.006 Positive Predictive Value Sfold: 0.535 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Carnac(seed) Matthews Correlation Coefficient Sfold: 0.469 Carnac(seed): 0.066 Sensitivity Sfold: 0.412 Carnac(seed): 0.005 Positive Predictive Value Sfold: 0.535 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RNASampler(seed) Matthews Correlation Coefficient Sfold: 0.469 RNASampler(seed): 0.063 Sensitivity Sfold: 0.412 RNASampler(seed): 0.005 Positive Predictive Value Sfold: 0.535 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs NanoFolder Matthews Correlation Coefficient Sfold: 0.469 NanoFolder: 0.052 Sensitivity Sfold: 0.412 NanoFolder: 0.016 Positive Predictive Value Sfold: 0.535 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Mastr(seed) Matthews Correlation Coefficient Sfold: 0.469 Mastr(seed): 0.051 Sensitivity Sfold: 0.412 Mastr(seed): 0.003 Positive Predictive Value Sfold: 0.535 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Multilign(seed) Matthews Correlation Coefficient Sfold: 0.469 Multilign(seed): 0.043 Sensitivity Sfold: 0.412 Multilign(seed): 0.003 Positive Predictive Value Sfold: 0.535 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
MaxExpect	1987 ContextFold vs MaxExpect Matthews Correlation Coefficient ContextFold: 0.680 MaxExpect: 0.465 Sensitivity ContextFold: 0.644 MaxExpect: 0.443 Positive Predictive Value ContextFold: 0.718 MaxExpect: 0.488 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs MaxExpect Matthews Correlation Coefficient IPknot: 0.548 MaxExpect: 0.465 Sensitivity IPknot: 0.475 MaxExpect: 0.443 Positive Predictive Value IPknot: 0.632 MaxExpect: 0.488 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs MaxExpect Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 MaxExpect: 0.465 Sensitivity PETfold_pre2.0(seed): 0.343 MaxExpect: 0.443 Positive Predictive Value PETfold_pre2.0(seed): 0.814 MaxExpect: 0.488 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs MaxExpect Matthews Correlation Coefficient Contrafold: 0.508 MaxExpect: 0.465 Sensitivity Contrafold: 0.481 MaxExpect: 0.443 Positive Predictive Value Contrafold: 0.537 MaxExpect: 0.488 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs MaxExpect Matthews Correlation Coefficient CentroidFold: 0.470 MaxExpect: 0.465 Sensitivity CentroidFold: 0.369 MaxExpect: 0.443 Positive Predictive Value CentroidFold: 0.600 MaxExpect: 0.488 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs MaxExpect Matthews Correlation Coefficient Sfold: 0.469 MaxExpect: 0.465 Sensitivity Sfold: 0.412 MaxExpect: 0.443 Positive Predictive Value Sfold: 0.535 MaxExpect: 0.488 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ MaxExpect vs ProbKnot Matthews Correlation Coefficient MaxExpect: 0.465 ProbKnot: 0.460 Sensitivity MaxExpect: 0.443 ProbKnot: 0.446 Positive Predictive Value MaxExpect: 0.488 ProbKnot: 0.475 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs UNAFold Matthews Correlation Coefficient MaxExpect: 0.465 UNAFold: 0.445 Sensitivity MaxExpect: 0.443 UNAFold: 0.445 Positive Predictive Value MaxExpect: 0.488 UNAFold: 0.446 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs CentroidAlifold(seed) Matthews Correlation Coefficient MaxExpect: 0.465 CentroidAlifold(seed): 0.438 Sensitivity MaxExpect: 0.443 CentroidAlifold(seed): 0.213 Positive Predictive Value MaxExpect: 0.488 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Fold Matthews Correlation Coefficient MaxExpect: 0.465 Fold: 0.437 Sensitivity MaxExpect: 0.443 Fold: 0.432 Positive Predictive Value MaxExpect: 0.488 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RNAfold Matthews Correlation Coefficient MaxExpect: 0.465 RNAfold: 0.429 Sensitivity MaxExpect: 0.443 RNAfold: 0.422 Positive Predictive Value MaxExpect: 0.488 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs CentroidHomfold‑LAST Matthews Correlation Coefficient MaxExpect: 0.465 CentroidHomfold‑LAST: 0.428 Sensitivity MaxExpect: 0.443 CentroidHomfold‑LAST: 0.216 Positive Predictive Value MaxExpect: 0.488 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs PETfold_pre2.0(20) Matthews Correlation Coefficient MaxExpect: 0.465 PETfold_pre2.0(20): 0.413 Sensitivity MaxExpect: 0.443 PETfold_pre2.0(20): 0.211 Positive Predictive Value MaxExpect: 0.488 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs CentroidAlifold(20) Matthews Correlation Coefficient MaxExpect: 0.465 CentroidAlifold(20): 0.411 Sensitivity MaxExpect: 0.443 CentroidAlifold(20): 0.190 Positive Predictive Value MaxExpect: 0.488 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs PknotsRG Matthews Correlation Coefficient MaxExpect: 0.465 PknotsRG: 0.386 Sensitivity MaxExpect: 0.443 PknotsRG: 0.320 Positive Predictive Value MaxExpect: 0.488 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs MXScarna(seed) Matthews Correlation Coefficient MaxExpect: 0.465 MXScarna(seed): 0.385 Sensitivity MaxExpect: 0.443 MXScarna(seed): 0.196 Positive Predictive Value MaxExpect: 0.488 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RNAalifold(20) Matthews Correlation Coefficient MaxExpect: 0.465 RNAalifold(20): 0.381 Sensitivity MaxExpect: 0.443 RNAalifold(20): 0.185 Positive Predictive Value MaxExpect: 0.488 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RNAalifold(seed) Matthews Correlation Coefficient MaxExpect: 0.465 RNAalifold(seed): 0.375 Sensitivity MaxExpect: 0.443 RNAalifold(seed): 0.169 Positive Predictive Value MaxExpect: 0.488 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Afold Matthews Correlation Coefficient MaxExpect: 0.465 Afold: 0.358 Sensitivity MaxExpect: 0.443 Afold: 0.295 Positive Predictive Value MaxExpect: 0.488 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs MXScarna(20) Matthews Correlation Coefficient MaxExpect: 0.465 MXScarna(20): 0.359 Sensitivity MaxExpect: 0.443 MXScarna(20): 0.181 Positive Predictive Value MaxExpect: 0.488 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs CRWrnafold Matthews Correlation Coefficient MaxExpect: 0.465 CRWrnafold: 0.346 Sensitivity MaxExpect: 0.443 CRWrnafold: 0.275 Positive Predictive Value MaxExpect: 0.488 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RNAsubopt Matthews Correlation Coefficient MaxExpect: 0.465 RNAsubopt: 0.336 Sensitivity MaxExpect: 0.443 RNAsubopt: 0.217 Positive Predictive Value MaxExpect: 0.488 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs McQFold Matthews Correlation Coefficient MaxExpect: 0.465 McQFold: 0.314 Sensitivity MaxExpect: 0.443 McQFold: 0.205 Positive Predictive Value MaxExpect: 0.488 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs TurboFold(20) Matthews Correlation Coefficient MaxExpect: 0.465 TurboFold(20): 0.301 Sensitivity MaxExpect: 0.443 TurboFold(20): 0.108 Positive Predictive Value MaxExpect: 0.488 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs PPfold(20) Matthews Correlation Coefficient MaxExpect: 0.465 PPfold(20): 0.298 Sensitivity MaxExpect: 0.443 PPfold(20): 0.101 Positive Predictive Value MaxExpect: 0.488 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RNAshapes Matthews Correlation Coefficient MaxExpect: 0.465 RNAshapes: 0.295 Sensitivity MaxExpect: 0.443 RNAshapes: 0.180 Positive Predictive Value MaxExpect: 0.488 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Carnac(20) Matthews Correlation Coefficient MaxExpect: 0.465 Carnac(20): 0.288 Sensitivity MaxExpect: 0.443 Carnac(20): 0.093 Positive Predictive Value MaxExpect: 0.488 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RNASLOpt Matthews Correlation Coefficient MaxExpect: 0.465 RNASLOpt: 0.281 Sensitivity MaxExpect: 0.443 RNASLOpt: 0.158 Positive Predictive Value MaxExpect: 0.488 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RSpredict(20) Matthews Correlation Coefficient MaxExpect: 0.465 RSpredict(20): 0.270 Sensitivity MaxExpect: 0.443 RSpredict(20): 0.124 Positive Predictive Value MaxExpect: 0.488 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Multilign(20) Matthews Correlation Coefficient MaxExpect: 0.465 Multilign(20): 0.251 Sensitivity MaxExpect: 0.443 Multilign(20): 0.083 Positive Predictive Value MaxExpect: 0.488 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RNAwolf Matthews Correlation Coefficient MaxExpect: 0.465 RNAwolf: 0.251 Sensitivity MaxExpect: 0.443 RNAwolf: 0.191 Positive Predictive Value MaxExpect: 0.488 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Murlet(20) Matthews Correlation Coefficient MaxExpect: 0.465 Murlet(20): 0.230 Sensitivity MaxExpect: 0.443 Murlet(20): 0.067 Positive Predictive Value MaxExpect: 0.488 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Vsfold4 Matthews Correlation Coefficient MaxExpect: 0.465 Vsfold4: 0.217 Sensitivity MaxExpect: 0.443 Vsfold4: 0.125 Positive Predictive Value MaxExpect: 0.488 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Vsfold5 Matthews Correlation Coefficient MaxExpect: 0.465 Vsfold5: 0.211 Sensitivity MaxExpect: 0.443 Vsfold5: 0.125 Positive Predictive Value MaxExpect: 0.488 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RSpredict(seed) Matthews Correlation Coefficient MaxExpect: 0.465 RSpredict(seed): 0.212 Sensitivity MaxExpect: 0.443 RSpredict(seed): 0.075 Positive Predictive Value MaxExpect: 0.488 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs CMfinder(20) Matthews Correlation Coefficient MaxExpect: 0.465 CMfinder(20): 0.210 Sensitivity MaxExpect: 0.443 CMfinder(20): 0.055 Positive Predictive Value MaxExpect: 0.488 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs HotKnots Matthews Correlation Coefficient MaxExpect: 0.465 HotKnots: 0.179 Sensitivity MaxExpect: 0.443 HotKnots: 0.051 Positive Predictive Value MaxExpect: 0.488 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RNASampler(20) Matthews Correlation Coefficient MaxExpect: 0.465 RNASampler(20): 0.176 Sensitivity MaxExpect: 0.443 RNASampler(20): 0.035 Positive Predictive Value MaxExpect: 0.488 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Cylofold Matthews Correlation Coefficient MaxExpect: 0.465 Cylofold: 0.155 Sensitivity MaxExpect: 0.443 Cylofold: 0.040 Positive Predictive Value MaxExpect: 0.488 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Pknots Matthews Correlation Coefficient MaxExpect: 0.465 Pknots: 0.143 Sensitivity MaxExpect: 0.443 Pknots: 0.033 Positive Predictive Value MaxExpect: 0.488 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Mastr(20) Matthews Correlation Coefficient MaxExpect: 0.465 Mastr(20): 0.134 Sensitivity MaxExpect: 0.443 Mastr(20): 0.023 Positive Predictive Value MaxExpect: 0.488 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Alterna Matthews Correlation Coefficient MaxExpect: 0.465 Alterna: 0.129 Sensitivity MaxExpect: 0.443 Alterna: 0.030 Positive Predictive Value MaxExpect: 0.488 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs MCFold Matthews Correlation Coefficient MaxExpect: 0.465 MCFold: 0.125 Sensitivity MaxExpect: 0.443 MCFold: 0.036 Positive Predictive Value MaxExpect: 0.488 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RDfolder Matthews Correlation Coefficient MaxExpect: 0.465 RDfolder: 0.122 Sensitivity MaxExpect: 0.443 RDfolder: 0.025 Positive Predictive Value MaxExpect: 0.488 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Murlet(seed) Matthews Correlation Coefficient MaxExpect: 0.465 Murlet(seed): 0.079 Sensitivity MaxExpect: 0.443 Murlet(seed): 0.008 Positive Predictive Value MaxExpect: 0.488 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs CMfinder(seed) Matthews Correlation Coefficient MaxExpect: 0.465 CMfinder(seed): 0.080 Sensitivity MaxExpect: 0.443 CMfinder(seed): 0.008 Positive Predictive Value MaxExpect: 0.488 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs TurboFold(seed) Matthews Correlation Coefficient MaxExpect: 0.465 TurboFold(seed): 0.076 Sensitivity MaxExpect: 0.443 TurboFold(seed): 0.007 Positive Predictive Value MaxExpect: 0.488 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs PPfold(seed) Matthews Correlation Coefficient MaxExpect: 0.465 PPfold(seed): 0.069 Sensitivity MaxExpect: 0.443 PPfold(seed): 0.006 Positive Predictive Value MaxExpect: 0.488 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Carnac(seed) Matthews Correlation Coefficient MaxExpect: 0.465 Carnac(seed): 0.066 Sensitivity MaxExpect: 0.443 Carnac(seed): 0.005 Positive Predictive Value MaxExpect: 0.488 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RNASampler(seed) Matthews Correlation Coefficient MaxExpect: 0.465 RNASampler(seed): 0.063 Sensitivity MaxExpect: 0.443 RNASampler(seed): 0.005 Positive Predictive Value MaxExpect: 0.488 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs NanoFolder Matthews Correlation Coefficient MaxExpect: 0.465 NanoFolder: 0.052 Sensitivity MaxExpect: 0.443 NanoFolder: 0.016 Positive Predictive Value MaxExpect: 0.488 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Mastr(seed) Matthews Correlation Coefficient MaxExpect: 0.465 Mastr(seed): 0.051 Sensitivity MaxExpect: 0.443 Mastr(seed): 0.003 Positive Predictive Value MaxExpect: 0.488 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Multilign(seed) Matthews Correlation Coefficient MaxExpect: 0.465 Multilign(seed): 0.043 Sensitivity MaxExpect: 0.443 Multilign(seed): 0.003 Positive Predictive Value MaxExpect: 0.488 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
ProbKnot	1987 ContextFold vs ProbKnot Matthews Correlation Coefficient ContextFold: 0.680 ProbKnot: 0.460 Sensitivity ContextFold: 0.644 ProbKnot: 0.446 Positive Predictive Value ContextFold: 0.718 ProbKnot: 0.475 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs ProbKnot Matthews Correlation Coefficient IPknot: 0.548 ProbKnot: 0.460 Sensitivity IPknot: 0.475 ProbKnot: 0.446 Positive Predictive Value IPknot: 0.632 ProbKnot: 0.475 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs ProbKnot Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 ProbKnot: 0.460 Sensitivity PETfold_pre2.0(seed): 0.343 ProbKnot: 0.446 Positive Predictive Value PETfold_pre2.0(seed): 0.814 ProbKnot: 0.475 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs ProbKnot Matthews Correlation Coefficient Contrafold: 0.508 ProbKnot: 0.460 Sensitivity Contrafold: 0.481 ProbKnot: 0.446 Positive Predictive Value Contrafold: 0.537 ProbKnot: 0.475 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs ProbKnot Matthews Correlation Coefficient CentroidFold: 0.470 ProbKnot: 0.460 Sensitivity CentroidFold: 0.369 ProbKnot: 0.446 Positive Predictive Value CentroidFold: 0.600 ProbKnot: 0.475 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs ProbKnot Matthews Correlation Coefficient Sfold: 0.469 ProbKnot: 0.460 Sensitivity Sfold: 0.412 ProbKnot: 0.446 Positive Predictive Value Sfold: 0.535 ProbKnot: 0.475 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs ProbKnot Matthews Correlation Coefficient MaxExpect: 0.465 ProbKnot: 0.460 Sensitivity MaxExpect: 0.443 ProbKnot: 0.446 Positive Predictive Value MaxExpect: 0.488 ProbKnot: 0.475 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ ProbKnot vs UNAFold Matthews Correlation Coefficient ProbKnot: 0.460 UNAFold: 0.445 Sensitivity ProbKnot: 0.446 UNAFold: 0.445 Positive Predictive Value ProbKnot: 0.475 UNAFold: 0.446 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs CentroidAlifold(seed) Matthews Correlation Coefficient ProbKnot: 0.460 CentroidAlifold(seed): 0.438 Sensitivity ProbKnot: 0.446 CentroidAlifold(seed): 0.213 Positive Predictive Value ProbKnot: 0.475 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Fold Matthews Correlation Coefficient ProbKnot: 0.460 Fold: 0.437 Sensitivity ProbKnot: 0.446 Fold: 0.432 Positive Predictive Value ProbKnot: 0.475 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RNAfold Matthews Correlation Coefficient ProbKnot: 0.460 RNAfold: 0.429 Sensitivity ProbKnot: 0.446 RNAfold: 0.422 Positive Predictive Value ProbKnot: 0.475 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs CentroidHomfold‑LAST Matthews Correlation Coefficient ProbKnot: 0.460 CentroidHomfold‑LAST: 0.428 Sensitivity ProbKnot: 0.446 CentroidHomfold‑LAST: 0.216 Positive Predictive Value ProbKnot: 0.475 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs PETfold_pre2.0(20) Matthews Correlation Coefficient ProbKnot: 0.460 PETfold_pre2.0(20): 0.413 Sensitivity ProbKnot: 0.446 PETfold_pre2.0(20): 0.211 Positive Predictive Value ProbKnot: 0.475 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs CentroidAlifold(20) Matthews Correlation Coefficient ProbKnot: 0.460 CentroidAlifold(20): 0.411 Sensitivity ProbKnot: 0.446 CentroidAlifold(20): 0.190 Positive Predictive Value ProbKnot: 0.475 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs PknotsRG Matthews Correlation Coefficient ProbKnot: 0.460 PknotsRG: 0.386 Sensitivity ProbKnot: 0.446 PknotsRG: 0.320 Positive Predictive Value ProbKnot: 0.475 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs MXScarna(seed) Matthews Correlation Coefficient ProbKnot: 0.460 MXScarna(seed): 0.385 Sensitivity ProbKnot: 0.446 MXScarna(seed): 0.196 Positive Predictive Value ProbKnot: 0.475 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RNAalifold(20) Matthews Correlation Coefficient ProbKnot: 0.460 RNAalifold(20): 0.381 Sensitivity ProbKnot: 0.446 RNAalifold(20): 0.185 Positive Predictive Value ProbKnot: 0.475 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RNAalifold(seed) Matthews Correlation Coefficient ProbKnot: 0.460 RNAalifold(seed): 0.375 Sensitivity ProbKnot: 0.446 RNAalifold(seed): 0.169 Positive Predictive Value ProbKnot: 0.475 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Afold Matthews Correlation Coefficient ProbKnot: 0.460 Afold: 0.358 Sensitivity ProbKnot: 0.446 Afold: 0.295 Positive Predictive Value ProbKnot: 0.475 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs MXScarna(20) Matthews Correlation Coefficient ProbKnot: 0.460 MXScarna(20): 0.359 Sensitivity ProbKnot: 0.446 MXScarna(20): 0.181 Positive Predictive Value ProbKnot: 0.475 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs CRWrnafold Matthews Correlation Coefficient ProbKnot: 0.460 CRWrnafold: 0.346 Sensitivity ProbKnot: 0.446 CRWrnafold: 0.275 Positive Predictive Value ProbKnot: 0.475 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RNAsubopt Matthews Correlation Coefficient ProbKnot: 0.460 RNAsubopt: 0.336 Sensitivity ProbKnot: 0.446 RNAsubopt: 0.217 Positive Predictive Value ProbKnot: 0.475 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs McQFold Matthews Correlation Coefficient ProbKnot: 0.460 McQFold: 0.314 Sensitivity ProbKnot: 0.446 McQFold: 0.205 Positive Predictive Value ProbKnot: 0.475 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs TurboFold(20) Matthews Correlation Coefficient ProbKnot: 0.460 TurboFold(20): 0.301 Sensitivity ProbKnot: 0.446 TurboFold(20): 0.108 Positive Predictive Value ProbKnot: 0.475 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs PPfold(20) Matthews Correlation Coefficient ProbKnot: 0.460 PPfold(20): 0.298 Sensitivity ProbKnot: 0.446 PPfold(20): 0.101 Positive Predictive Value ProbKnot: 0.475 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RNAshapes Matthews Correlation Coefficient ProbKnot: 0.460 RNAshapes: 0.295 Sensitivity ProbKnot: 0.446 RNAshapes: 0.180 Positive Predictive Value ProbKnot: 0.475 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Carnac(20) Matthews Correlation Coefficient ProbKnot: 0.460 Carnac(20): 0.288 Sensitivity ProbKnot: 0.446 Carnac(20): 0.093 Positive Predictive Value ProbKnot: 0.475 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RNASLOpt Matthews Correlation Coefficient ProbKnot: 0.460 RNASLOpt: 0.281 Sensitivity ProbKnot: 0.446 RNASLOpt: 0.158 Positive Predictive Value ProbKnot: 0.475 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RSpredict(20) Matthews Correlation Coefficient ProbKnot: 0.460 RSpredict(20): 0.270 Sensitivity ProbKnot: 0.446 RSpredict(20): 0.124 Positive Predictive Value ProbKnot: 0.475 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Multilign(20) Matthews Correlation Coefficient ProbKnot: 0.460 Multilign(20): 0.251 Sensitivity ProbKnot: 0.446 Multilign(20): 0.083 Positive Predictive Value ProbKnot: 0.475 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RNAwolf Matthews Correlation Coefficient ProbKnot: 0.460 RNAwolf: 0.251 Sensitivity ProbKnot: 0.446 RNAwolf: 0.191 Positive Predictive Value ProbKnot: 0.475 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Murlet(20) Matthews Correlation Coefficient ProbKnot: 0.460 Murlet(20): 0.230 Sensitivity ProbKnot: 0.446 Murlet(20): 0.067 Positive Predictive Value ProbKnot: 0.475 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Vsfold4 Matthews Correlation Coefficient ProbKnot: 0.460 Vsfold4: 0.217 Sensitivity ProbKnot: 0.446 Vsfold4: 0.125 Positive Predictive Value ProbKnot: 0.475 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Vsfold5 Matthews Correlation Coefficient ProbKnot: 0.460 Vsfold5: 0.211 Sensitivity ProbKnot: 0.446 Vsfold5: 0.125 Positive Predictive Value ProbKnot: 0.475 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RSpredict(seed) Matthews Correlation Coefficient ProbKnot: 0.460 RSpredict(seed): 0.212 Sensitivity ProbKnot: 0.446 RSpredict(seed): 0.075 Positive Predictive Value ProbKnot: 0.475 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs CMfinder(20) Matthews Correlation Coefficient ProbKnot: 0.460 CMfinder(20): 0.210 Sensitivity ProbKnot: 0.446 CMfinder(20): 0.055 Positive Predictive Value ProbKnot: 0.475 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs HotKnots Matthews Correlation Coefficient ProbKnot: 0.460 HotKnots: 0.179 Sensitivity ProbKnot: 0.446 HotKnots: 0.051 Positive Predictive Value ProbKnot: 0.475 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RNASampler(20) Matthews Correlation Coefficient ProbKnot: 0.460 RNASampler(20): 0.176 Sensitivity ProbKnot: 0.446 RNASampler(20): 0.035 Positive Predictive Value ProbKnot: 0.475 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Cylofold Matthews Correlation Coefficient ProbKnot: 0.460 Cylofold: 0.155 Sensitivity ProbKnot: 0.446 Cylofold: 0.040 Positive Predictive Value ProbKnot: 0.475 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Pknots Matthews Correlation Coefficient ProbKnot: 0.460 Pknots: 0.143 Sensitivity ProbKnot: 0.446 Pknots: 0.033 Positive Predictive Value ProbKnot: 0.475 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Mastr(20) Matthews Correlation Coefficient ProbKnot: 0.460 Mastr(20): 0.134 Sensitivity ProbKnot: 0.446 Mastr(20): 0.023 Positive Predictive Value ProbKnot: 0.475 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Alterna Matthews Correlation Coefficient ProbKnot: 0.460 Alterna: 0.129 Sensitivity ProbKnot: 0.446 Alterna: 0.030 Positive Predictive Value ProbKnot: 0.475 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs MCFold Matthews Correlation Coefficient ProbKnot: 0.460 MCFold: 0.125 Sensitivity ProbKnot: 0.446 MCFold: 0.036 Positive Predictive Value ProbKnot: 0.475 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RDfolder Matthews Correlation Coefficient ProbKnot: 0.460 RDfolder: 0.122 Sensitivity ProbKnot: 0.446 RDfolder: 0.025 Positive Predictive Value ProbKnot: 0.475 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Murlet(seed) Matthews Correlation Coefficient ProbKnot: 0.460 Murlet(seed): 0.079 Sensitivity ProbKnot: 0.446 Murlet(seed): 0.008 Positive Predictive Value ProbKnot: 0.475 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs CMfinder(seed) Matthews Correlation Coefficient ProbKnot: 0.460 CMfinder(seed): 0.080 Sensitivity ProbKnot: 0.446 CMfinder(seed): 0.008 Positive Predictive Value ProbKnot: 0.475 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs TurboFold(seed) Matthews Correlation Coefficient ProbKnot: 0.460 TurboFold(seed): 0.076 Sensitivity ProbKnot: 0.446 TurboFold(seed): 0.007 Positive Predictive Value ProbKnot: 0.475 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs PPfold(seed) Matthews Correlation Coefficient ProbKnot: 0.460 PPfold(seed): 0.069 Sensitivity ProbKnot: 0.446 PPfold(seed): 0.006 Positive Predictive Value ProbKnot: 0.475 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Carnac(seed) Matthews Correlation Coefficient ProbKnot: 0.460 Carnac(seed): 0.066 Sensitivity ProbKnot: 0.446 Carnac(seed): 0.005 Positive Predictive Value ProbKnot: 0.475 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RNASampler(seed) Matthews Correlation Coefficient ProbKnot: 0.460 RNASampler(seed): 0.063 Sensitivity ProbKnot: 0.446 RNASampler(seed): 0.005 Positive Predictive Value ProbKnot: 0.475 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs NanoFolder Matthews Correlation Coefficient ProbKnot: 0.460 NanoFolder: 0.052 Sensitivity ProbKnot: 0.446 NanoFolder: 0.016 Positive Predictive Value ProbKnot: 0.475 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Mastr(seed) Matthews Correlation Coefficient ProbKnot: 0.460 Mastr(seed): 0.051 Sensitivity ProbKnot: 0.446 Mastr(seed): 0.003 Positive Predictive Value ProbKnot: 0.475 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Multilign(seed) Matthews Correlation Coefficient ProbKnot: 0.460 Multilign(seed): 0.043 Sensitivity ProbKnot: 0.446 Multilign(seed): 0.003 Positive Predictive Value ProbKnot: 0.475 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
UNAFold	1987 ContextFold vs UNAFold Matthews Correlation Coefficient ContextFold: 0.680 UNAFold: 0.445 Sensitivity ContextFold: 0.644 UNAFold: 0.445 Positive Predictive Value ContextFold: 0.718 UNAFold: 0.446 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs UNAFold Matthews Correlation Coefficient IPknot: 0.548 UNAFold: 0.445 Sensitivity IPknot: 0.475 UNAFold: 0.445 Positive Predictive Value IPknot: 0.632 UNAFold: 0.446 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs UNAFold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 UNAFold: 0.445 Sensitivity PETfold_pre2.0(seed): 0.343 UNAFold: 0.445 Positive Predictive Value PETfold_pre2.0(seed): 0.814 UNAFold: 0.446 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs UNAFold Matthews Correlation Coefficient Contrafold: 0.508 UNAFold: 0.445 Sensitivity Contrafold: 0.481 UNAFold: 0.445 Positive Predictive Value Contrafold: 0.537 UNAFold: 0.446 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs UNAFold Matthews Correlation Coefficient CentroidFold: 0.470 UNAFold: 0.445 Sensitivity CentroidFold: 0.369 UNAFold: 0.445 Positive Predictive Value CentroidFold: 0.600 UNAFold: 0.446 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs UNAFold Matthews Correlation Coefficient Sfold: 0.469 UNAFold: 0.445 Sensitivity Sfold: 0.412 UNAFold: 0.445 Positive Predictive Value Sfold: 0.535 UNAFold: 0.446 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs UNAFold Matthews Correlation Coefficient MaxExpect: 0.465 UNAFold: 0.445 Sensitivity MaxExpect: 0.443 UNAFold: 0.445 Positive Predictive Value MaxExpect: 0.488 UNAFold: 0.446 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs UNAFold Matthews Correlation Coefficient ProbKnot: 0.460 UNAFold: 0.445 Sensitivity ProbKnot: 0.446 UNAFold: 0.445 Positive Predictive Value ProbKnot: 0.475 UNAFold: 0.446 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ UNAFold vs CentroidAlifold(seed) Matthews Correlation Coefficient UNAFold: 0.445 CentroidAlifold(seed): 0.438 Sensitivity UNAFold: 0.445 CentroidAlifold(seed): 0.213 Positive Predictive Value UNAFold: 0.446 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Fold Matthews Correlation Coefficient UNAFold: 0.445 Fold: 0.437 Sensitivity UNAFold: 0.445 Fold: 0.432 Positive Predictive Value UNAFold: 0.446 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RNAfold Matthews Correlation Coefficient UNAFold: 0.445 RNAfold: 0.429 Sensitivity UNAFold: 0.445 RNAfold: 0.422 Positive Predictive Value UNAFold: 0.446 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs CentroidHomfold‑LAST Matthews Correlation Coefficient UNAFold: 0.445 CentroidHomfold‑LAST: 0.428 Sensitivity UNAFold: 0.445 CentroidHomfold‑LAST: 0.216 Positive Predictive Value UNAFold: 0.446 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs PETfold_pre2.0(20) Matthews Correlation Coefficient UNAFold: 0.445 PETfold_pre2.0(20): 0.413 Sensitivity UNAFold: 0.445 PETfold_pre2.0(20): 0.211 Positive Predictive Value UNAFold: 0.446 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs CentroidAlifold(20) Matthews Correlation Coefficient UNAFold: 0.445 CentroidAlifold(20): 0.411 Sensitivity UNAFold: 0.445 CentroidAlifold(20): 0.190 Positive Predictive Value UNAFold: 0.446 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs PknotsRG Matthews Correlation Coefficient UNAFold: 0.445 PknotsRG: 0.386 Sensitivity UNAFold: 0.445 PknotsRG: 0.320 Positive Predictive Value UNAFold: 0.446 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs MXScarna(seed) Matthews Correlation Coefficient UNAFold: 0.445 MXScarna(seed): 0.385 Sensitivity UNAFold: 0.445 MXScarna(seed): 0.196 Positive Predictive Value UNAFold: 0.446 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RNAalifold(20) Matthews Correlation Coefficient UNAFold: 0.445 RNAalifold(20): 0.381 Sensitivity UNAFold: 0.445 RNAalifold(20): 0.185 Positive Predictive Value UNAFold: 0.446 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RNAalifold(seed) Matthews Correlation Coefficient UNAFold: 0.445 RNAalifold(seed): 0.375 Sensitivity UNAFold: 0.445 RNAalifold(seed): 0.169 Positive Predictive Value UNAFold: 0.446 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Afold Matthews Correlation Coefficient UNAFold: 0.445 Afold: 0.358 Sensitivity UNAFold: 0.445 Afold: 0.295 Positive Predictive Value UNAFold: 0.446 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs MXScarna(20) Matthews Correlation Coefficient UNAFold: 0.445 MXScarna(20): 0.359 Sensitivity UNAFold: 0.445 MXScarna(20): 0.181 Positive Predictive Value UNAFold: 0.446 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs CRWrnafold Matthews Correlation Coefficient UNAFold: 0.445 CRWrnafold: 0.346 Sensitivity UNAFold: 0.445 CRWrnafold: 0.275 Positive Predictive Value UNAFold: 0.446 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RNAsubopt Matthews Correlation Coefficient UNAFold: 0.445 RNAsubopt: 0.336 Sensitivity UNAFold: 0.445 RNAsubopt: 0.217 Positive Predictive Value UNAFold: 0.446 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs McQFold Matthews Correlation Coefficient UNAFold: 0.445 McQFold: 0.314 Sensitivity UNAFold: 0.445 McQFold: 0.205 Positive Predictive Value UNAFold: 0.446 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs TurboFold(20) Matthews Correlation Coefficient UNAFold: 0.445 TurboFold(20): 0.301 Sensitivity UNAFold: 0.445 TurboFold(20): 0.108 Positive Predictive Value UNAFold: 0.446 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs PPfold(20) Matthews Correlation Coefficient UNAFold: 0.445 PPfold(20): 0.298 Sensitivity UNAFold: 0.445 PPfold(20): 0.101 Positive Predictive Value UNAFold: 0.446 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RNAshapes Matthews Correlation Coefficient UNAFold: 0.445 RNAshapes: 0.295 Sensitivity UNAFold: 0.445 RNAshapes: 0.180 Positive Predictive Value UNAFold: 0.446 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Carnac(20) Matthews Correlation Coefficient UNAFold: 0.445 Carnac(20): 0.288 Sensitivity UNAFold: 0.445 Carnac(20): 0.093 Positive Predictive Value UNAFold: 0.446 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RNASLOpt Matthews Correlation Coefficient UNAFold: 0.445 RNASLOpt: 0.281 Sensitivity UNAFold: 0.445 RNASLOpt: 0.158 Positive Predictive Value UNAFold: 0.446 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RSpredict(20) Matthews Correlation Coefficient UNAFold: 0.445 RSpredict(20): 0.270 Sensitivity UNAFold: 0.445 RSpredict(20): 0.124 Positive Predictive Value UNAFold: 0.446 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Multilign(20) Matthews Correlation Coefficient UNAFold: 0.445 Multilign(20): 0.251 Sensitivity UNAFold: 0.445 Multilign(20): 0.083 Positive Predictive Value UNAFold: 0.446 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RNAwolf Matthews Correlation Coefficient UNAFold: 0.445 RNAwolf: 0.251 Sensitivity UNAFold: 0.445 RNAwolf: 0.191 Positive Predictive Value UNAFold: 0.446 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Murlet(20) Matthews Correlation Coefficient UNAFold: 0.445 Murlet(20): 0.230 Sensitivity UNAFold: 0.445 Murlet(20): 0.067 Positive Predictive Value UNAFold: 0.446 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Vsfold4 Matthews Correlation Coefficient UNAFold: 0.445 Vsfold4: 0.217 Sensitivity UNAFold: 0.445 Vsfold4: 0.125 Positive Predictive Value UNAFold: 0.446 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Vsfold5 Matthews Correlation Coefficient UNAFold: 0.445 Vsfold5: 0.211 Sensitivity UNAFold: 0.445 Vsfold5: 0.125 Positive Predictive Value UNAFold: 0.446 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RSpredict(seed) Matthews Correlation Coefficient UNAFold: 0.445 RSpredict(seed): 0.212 Sensitivity UNAFold: 0.445 RSpredict(seed): 0.075 Positive Predictive Value UNAFold: 0.446 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs CMfinder(20) Matthews Correlation Coefficient UNAFold: 0.445 CMfinder(20): 0.210 Sensitivity UNAFold: 0.445 CMfinder(20): 0.055 Positive Predictive Value UNAFold: 0.446 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs HotKnots Matthews Correlation Coefficient UNAFold: 0.445 HotKnots: 0.179 Sensitivity UNAFold: 0.445 HotKnots: 0.051 Positive Predictive Value UNAFold: 0.446 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RNASampler(20) Matthews Correlation Coefficient UNAFold: 0.445 RNASampler(20): 0.176 Sensitivity UNAFold: 0.445 RNASampler(20): 0.035 Positive Predictive Value UNAFold: 0.446 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Cylofold Matthews Correlation Coefficient UNAFold: 0.445 Cylofold: 0.155 Sensitivity UNAFold: 0.445 Cylofold: 0.040 Positive Predictive Value UNAFold: 0.446 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Pknots Matthews Correlation Coefficient UNAFold: 0.445 Pknots: 0.143 Sensitivity UNAFold: 0.445 Pknots: 0.033 Positive Predictive Value UNAFold: 0.446 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Mastr(20) Matthews Correlation Coefficient UNAFold: 0.445 Mastr(20): 0.134 Sensitivity UNAFold: 0.445 Mastr(20): 0.023 Positive Predictive Value UNAFold: 0.446 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Alterna Matthews Correlation Coefficient UNAFold: 0.445 Alterna: 0.129 Sensitivity UNAFold: 0.445 Alterna: 0.030 Positive Predictive Value UNAFold: 0.446 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs MCFold Matthews Correlation Coefficient UNAFold: 0.445 MCFold: 0.125 Sensitivity UNAFold: 0.445 MCFold: 0.036 Positive Predictive Value UNAFold: 0.446 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RDfolder Matthews Correlation Coefficient UNAFold: 0.445 RDfolder: 0.122 Sensitivity UNAFold: 0.445 RDfolder: 0.025 Positive Predictive Value UNAFold: 0.446 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Murlet(seed) Matthews Correlation Coefficient UNAFold: 0.445 Murlet(seed): 0.079 Sensitivity UNAFold: 0.445 Murlet(seed): 0.008 Positive Predictive Value UNAFold: 0.446 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs CMfinder(seed) Matthews Correlation Coefficient UNAFold: 0.445 CMfinder(seed): 0.080 Sensitivity UNAFold: 0.445 CMfinder(seed): 0.008 Positive Predictive Value UNAFold: 0.446 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs TurboFold(seed) Matthews Correlation Coefficient UNAFold: 0.445 TurboFold(seed): 0.076 Sensitivity UNAFold: 0.445 TurboFold(seed): 0.007 Positive Predictive Value UNAFold: 0.446 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs PPfold(seed) Matthews Correlation Coefficient UNAFold: 0.445 PPfold(seed): 0.069 Sensitivity UNAFold: 0.445 PPfold(seed): 0.006 Positive Predictive Value UNAFold: 0.446 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Carnac(seed) Matthews Correlation Coefficient UNAFold: 0.445 Carnac(seed): 0.066 Sensitivity UNAFold: 0.445 Carnac(seed): 0.005 Positive Predictive Value UNAFold: 0.446 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RNASampler(seed) Matthews Correlation Coefficient UNAFold: 0.445 RNASampler(seed): 0.063 Sensitivity UNAFold: 0.445 RNASampler(seed): 0.005 Positive Predictive Value UNAFold: 0.446 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs NanoFolder Matthews Correlation Coefficient UNAFold: 0.445 NanoFolder: 0.052 Sensitivity UNAFold: 0.445 NanoFolder: 0.016 Positive Predictive Value UNAFold: 0.446 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Mastr(seed) Matthews Correlation Coefficient UNAFold: 0.445 Mastr(seed): 0.051 Sensitivity UNAFold: 0.445 Mastr(seed): 0.003 Positive Predictive Value UNAFold: 0.446 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Multilign(seed) Matthews Correlation Coefficient UNAFold: 0.445 Multilign(seed): 0.043 Sensitivity UNAFold: 0.445 Multilign(seed): 0.003 Positive Predictive Value UNAFold: 0.446 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
CentroidAlifold(seed)	1987 ContextFold vs CentroidAlifold(seed) Matthews Correlation Coefficient ContextFold: 0.680 CentroidAlifold(seed): 0.438 Sensitivity ContextFold: 0.644 CentroidAlifold(seed): 0.213 Positive Predictive Value ContextFold: 0.718 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs CentroidAlifold(seed) Matthews Correlation Coefficient IPknot: 0.548 CentroidAlifold(seed): 0.438 Sensitivity IPknot: 0.475 CentroidAlifold(seed): 0.213 Positive Predictive Value IPknot: 0.632 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs CentroidAlifold(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 CentroidAlifold(seed): 0.438 Sensitivity PETfold_pre2.0(seed): 0.343 CentroidAlifold(seed): 0.213 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs CentroidAlifold(seed) Matthews Correlation Coefficient Contrafold: 0.508 CentroidAlifold(seed): 0.438 Sensitivity Contrafold: 0.481 CentroidAlifold(seed): 0.213 Positive Predictive Value Contrafold: 0.537 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs CentroidAlifold(seed) Matthews Correlation Coefficient CentroidFold: 0.470 CentroidAlifold(seed): 0.438 Sensitivity CentroidFold: 0.369 CentroidAlifold(seed): 0.213 Positive Predictive Value CentroidFold: 0.600 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs CentroidAlifold(seed) Matthews Correlation Coefficient Sfold: 0.469 CentroidAlifold(seed): 0.438 Sensitivity Sfold: 0.412 CentroidAlifold(seed): 0.213 Positive Predictive Value Sfold: 0.535 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs CentroidAlifold(seed) Matthews Correlation Coefficient MaxExpect: 0.465 CentroidAlifold(seed): 0.438 Sensitivity MaxExpect: 0.443 CentroidAlifold(seed): 0.213 Positive Predictive Value MaxExpect: 0.488 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs CentroidAlifold(seed) Matthews Correlation Coefficient ProbKnot: 0.460 CentroidAlifold(seed): 0.438 Sensitivity ProbKnot: 0.446 CentroidAlifold(seed): 0.213 Positive Predictive Value ProbKnot: 0.475 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs CentroidAlifold(seed) Matthews Correlation Coefficient UNAFold: 0.445 CentroidAlifold(seed): 0.438 Sensitivity UNAFold: 0.445 CentroidAlifold(seed): 0.213 Positive Predictive Value UNAFold: 0.446 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		= CentroidAlifold(seed) vs Fold Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Fold: 0.437 Sensitivity CentroidAlifold(seed): 0.213 Fold: 0.432 Positive Predictive Value CentroidAlifold(seed): 0.901 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.88245777838	+ CentroidAlifold(seed) vs RNAfold Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RNAfold: 0.429 Sensitivity CentroidAlifold(seed): 0.213 RNAfold: 0.422 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.85233844192e-08	+ CentroidAlifold(seed) vs CentroidHomfold‑LAST Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 CentroidHomfold‑LAST: 0.428 Sensitivity CentroidAlifold(seed): 0.213 CentroidHomfold‑LAST: 0.216 Positive Predictive Value CentroidAlifold(seed): 0.901 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 6.53888633552e-08	+ CentroidAlifold(seed) vs PETfold_pre2.0(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 PETfold_pre2.0(20): 0.413 Sensitivity CentroidAlifold(seed): 0.213 PETfold_pre2.0(20): 0.211 Positive Predictive Value CentroidAlifold(seed): 0.901 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs CentroidAlifold(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 CentroidAlifold(20): 0.411 Sensitivity CentroidAlifold(seed): 0.213 CentroidAlifold(20): 0.190 Positive Predictive Value CentroidAlifold(seed): 0.901 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs PknotsRG Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 PknotsRG: 0.386 Sensitivity CentroidAlifold(seed): 0.213 PknotsRG: 0.320 Positive Predictive Value CentroidAlifold(seed): 0.901 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs MXScarna(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 MXScarna(seed): 0.385 Sensitivity CentroidAlifold(seed): 0.213 MXScarna(seed): 0.196 Positive Predictive Value CentroidAlifold(seed): 0.901 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RNAalifold(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RNAalifold(20): 0.381 Sensitivity CentroidAlifold(seed): 0.213 RNAalifold(20): 0.185 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RNAalifold(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RNAalifold(seed): 0.375 Sensitivity CentroidAlifold(seed): 0.213 RNAalifold(seed): 0.169 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Afold Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Afold: 0.358 Sensitivity CentroidAlifold(seed): 0.213 Afold: 0.295 Positive Predictive Value CentroidAlifold(seed): 0.901 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs MXScarna(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 MXScarna(20): 0.359 Sensitivity CentroidAlifold(seed): 0.213 MXScarna(20): 0.181 Positive Predictive Value CentroidAlifold(seed): 0.901 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs CRWrnafold Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 CRWrnafold: 0.346 Sensitivity CentroidAlifold(seed): 0.213 CRWrnafold: 0.275 Positive Predictive Value CentroidAlifold(seed): 0.901 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RNAsubopt Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RNAsubopt: 0.336 Sensitivity CentroidAlifold(seed): 0.213 RNAsubopt: 0.217 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs McQFold Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 McQFold: 0.314 Sensitivity CentroidAlifold(seed): 0.213 McQFold: 0.205 Positive Predictive Value CentroidAlifold(seed): 0.901 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs TurboFold(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 TurboFold(20): 0.301 Sensitivity CentroidAlifold(seed): 0.213 TurboFold(20): 0.108 Positive Predictive Value CentroidAlifold(seed): 0.901 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs PPfold(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 PPfold(20): 0.298 Sensitivity CentroidAlifold(seed): 0.213 PPfold(20): 0.101 Positive Predictive Value CentroidAlifold(seed): 0.901 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RNAshapes Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RNAshapes: 0.295 Sensitivity CentroidAlifold(seed): 0.213 RNAshapes: 0.180 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Carnac(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Carnac(20): 0.288 Sensitivity CentroidAlifold(seed): 0.213 Carnac(20): 0.093 Positive Predictive Value CentroidAlifold(seed): 0.901 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RNASLOpt Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RNASLOpt: 0.281 Sensitivity CentroidAlifold(seed): 0.213 RNASLOpt: 0.158 Positive Predictive Value CentroidAlifold(seed): 0.901 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RSpredict(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RSpredict(20): 0.270 Sensitivity CentroidAlifold(seed): 0.213 RSpredict(20): 0.124 Positive Predictive Value CentroidAlifold(seed): 0.901 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Multilign(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Multilign(20): 0.251 Sensitivity CentroidAlifold(seed): 0.213 Multilign(20): 0.083 Positive Predictive Value CentroidAlifold(seed): 0.901 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RNAwolf Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RNAwolf: 0.251 Sensitivity CentroidAlifold(seed): 0.213 RNAwolf: 0.191 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Murlet(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Murlet(20): 0.230 Sensitivity CentroidAlifold(seed): 0.213 Murlet(20): 0.067 Positive Predictive Value CentroidAlifold(seed): 0.901 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Vsfold4 Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Vsfold4: 0.217 Sensitivity CentroidAlifold(seed): 0.213 Vsfold4: 0.125 Positive Predictive Value CentroidAlifold(seed): 0.901 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Vsfold5 Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Vsfold5: 0.211 Sensitivity CentroidAlifold(seed): 0.213 Vsfold5: 0.125 Positive Predictive Value CentroidAlifold(seed): 0.901 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RSpredict(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RSpredict(seed): 0.212 Sensitivity CentroidAlifold(seed): 0.213 RSpredict(seed): 0.075 Positive Predictive Value CentroidAlifold(seed): 0.901 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs CMfinder(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 CMfinder(20): 0.210 Sensitivity CentroidAlifold(seed): 0.213 CMfinder(20): 0.055 Positive Predictive Value CentroidAlifold(seed): 0.901 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs HotKnots Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 HotKnots: 0.179 Sensitivity CentroidAlifold(seed): 0.213 HotKnots: 0.051 Positive Predictive Value CentroidAlifold(seed): 0.901 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RNASampler(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RNASampler(20): 0.176 Sensitivity CentroidAlifold(seed): 0.213 RNASampler(20): 0.035 Positive Predictive Value CentroidAlifold(seed): 0.901 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Cylofold Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Cylofold: 0.155 Sensitivity CentroidAlifold(seed): 0.213 Cylofold: 0.040 Positive Predictive Value CentroidAlifold(seed): 0.901 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Pknots Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Pknots: 0.143 Sensitivity CentroidAlifold(seed): 0.213 Pknots: 0.033 Positive Predictive Value CentroidAlifold(seed): 0.901 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Mastr(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Mastr(20): 0.134 Sensitivity CentroidAlifold(seed): 0.213 Mastr(20): 0.023 Positive Predictive Value CentroidAlifold(seed): 0.901 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Alterna Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Alterna: 0.129 Sensitivity CentroidAlifold(seed): 0.213 Alterna: 0.030 Positive Predictive Value CentroidAlifold(seed): 0.901 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs MCFold Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 MCFold: 0.125 Sensitivity CentroidAlifold(seed): 0.213 MCFold: 0.036 Positive Predictive Value CentroidAlifold(seed): 0.901 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RDfolder Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RDfolder: 0.122 Sensitivity CentroidAlifold(seed): 0.213 RDfolder: 0.025 Positive Predictive Value CentroidAlifold(seed): 0.901 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Murlet(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Murlet(seed): 0.079 Sensitivity CentroidAlifold(seed): 0.213 Murlet(seed): 0.008 Positive Predictive Value CentroidAlifold(seed): 0.901 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs CMfinder(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 CMfinder(seed): 0.080 Sensitivity CentroidAlifold(seed): 0.213 CMfinder(seed): 0.008 Positive Predictive Value CentroidAlifold(seed): 0.901 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs TurboFold(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 TurboFold(seed): 0.076 Sensitivity CentroidAlifold(seed): 0.213 TurboFold(seed): 0.007 Positive Predictive Value CentroidAlifold(seed): 0.901 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs PPfold(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 PPfold(seed): 0.069 Sensitivity CentroidAlifold(seed): 0.213 PPfold(seed): 0.006 Positive Predictive Value CentroidAlifold(seed): 0.901 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Carnac(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Carnac(seed): 0.066 Sensitivity CentroidAlifold(seed): 0.213 Carnac(seed): 0.005 Positive Predictive Value CentroidAlifold(seed): 0.901 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RNASampler(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RNASampler(seed): 0.063 Sensitivity CentroidAlifold(seed): 0.213 RNASampler(seed): 0.005 Positive Predictive Value CentroidAlifold(seed): 0.901 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs NanoFolder Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 NanoFolder: 0.052 Sensitivity CentroidAlifold(seed): 0.213 NanoFolder: 0.016 Positive Predictive Value CentroidAlifold(seed): 0.901 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Mastr(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Mastr(seed): 0.051 Sensitivity CentroidAlifold(seed): 0.213 Mastr(seed): 0.003 Positive Predictive Value CentroidAlifold(seed): 0.901 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Multilign(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Multilign(seed): 0.043 Sensitivity CentroidAlifold(seed): 0.213 Multilign(seed): 0.003 Positive Predictive Value CentroidAlifold(seed): 0.901 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
Fold	1987 ContextFold vs Fold Matthews Correlation Coefficient ContextFold: 0.680 Fold: 0.437 Sensitivity ContextFold: 0.644 Fold: 0.432 Positive Predictive Value ContextFold: 0.718 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs Fold Matthews Correlation Coefficient IPknot: 0.548 Fold: 0.437 Sensitivity IPknot: 0.475 Fold: 0.432 Positive Predictive Value IPknot: 0.632 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs Fold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Fold: 0.437 Sensitivity PETfold_pre2.0(seed): 0.343 Fold: 0.432 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs Fold Matthews Correlation Coefficient Contrafold: 0.508 Fold: 0.437 Sensitivity Contrafold: 0.481 Fold: 0.432 Positive Predictive Value Contrafold: 0.537 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs Fold Matthews Correlation Coefficient CentroidFold: 0.470 Fold: 0.437 Sensitivity CentroidFold: 0.369 Fold: 0.432 Positive Predictive Value CentroidFold: 0.600 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs Fold Matthews Correlation Coefficient Sfold: 0.469 Fold: 0.437 Sensitivity Sfold: 0.412 Fold: 0.432 Positive Predictive Value Sfold: 0.535 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs Fold Matthews Correlation Coefficient MaxExpect: 0.465 Fold: 0.437 Sensitivity MaxExpect: 0.443 Fold: 0.432 Positive Predictive Value MaxExpect: 0.488 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs Fold Matthews Correlation Coefficient ProbKnot: 0.460 Fold: 0.437 Sensitivity ProbKnot: 0.446 Fold: 0.432 Positive Predictive Value ProbKnot: 0.475 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs Fold Matthews Correlation Coefficient UNAFold: 0.445 Fold: 0.437 Sensitivity UNAFold: 0.445 Fold: 0.432 Positive Predictive Value UNAFold: 0.446 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs Fold Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Fold: 0.437 Sensitivity CentroidAlifold(seed): 0.213 Fold: 0.432 Positive Predictive Value CentroidAlifold(seed): 0.901 Fold: 0.444 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.88245777838		+ Fold vs RNAfold Matthews Correlation Coefficient Fold: 0.437 RNAfold: 0.429 Sensitivity Fold: 0.432 RNAfold: 0.422 Positive Predictive Value Fold: 0.444 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs CentroidHomfold‑LAST Matthews Correlation Coefficient Fold: 0.437 CentroidHomfold‑LAST: 0.428 Sensitivity Fold: 0.432 CentroidHomfold‑LAST: 0.216 Positive Predictive Value Fold: 0.444 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs PETfold_pre2.0(20) Matthews Correlation Coefficient Fold: 0.437 PETfold_pre2.0(20): 0.413 Sensitivity Fold: 0.432 PETfold_pre2.0(20): 0.211 Positive Predictive Value Fold: 0.444 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs CentroidAlifold(20) Matthews Correlation Coefficient Fold: 0.437 CentroidAlifold(20): 0.411 Sensitivity Fold: 0.432 CentroidAlifold(20): 0.190 Positive Predictive Value Fold: 0.444 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs PknotsRG Matthews Correlation Coefficient Fold: 0.437 PknotsRG: 0.386 Sensitivity Fold: 0.432 PknotsRG: 0.320 Positive Predictive Value Fold: 0.444 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs MXScarna(seed) Matthews Correlation Coefficient Fold: 0.437 MXScarna(seed): 0.385 Sensitivity Fold: 0.432 MXScarna(seed): 0.196 Positive Predictive Value Fold: 0.444 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RNAalifold(20) Matthews Correlation Coefficient Fold: 0.437 RNAalifold(20): 0.381 Sensitivity Fold: 0.432 RNAalifold(20): 0.185 Positive Predictive Value Fold: 0.444 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RNAalifold(seed) Matthews Correlation Coefficient Fold: 0.437 RNAalifold(seed): 0.375 Sensitivity Fold: 0.432 RNAalifold(seed): 0.169 Positive Predictive Value Fold: 0.444 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Afold Matthews Correlation Coefficient Fold: 0.437 Afold: 0.358 Sensitivity Fold: 0.432 Afold: 0.295 Positive Predictive Value Fold: 0.444 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs MXScarna(20) Matthews Correlation Coefficient Fold: 0.437 MXScarna(20): 0.359 Sensitivity Fold: 0.432 MXScarna(20): 0.181 Positive Predictive Value Fold: 0.444 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs CRWrnafold Matthews Correlation Coefficient Fold: 0.437 CRWrnafold: 0.346 Sensitivity Fold: 0.432 CRWrnafold: 0.275 Positive Predictive Value Fold: 0.444 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RNAsubopt Matthews Correlation Coefficient Fold: 0.437 RNAsubopt: 0.336 Sensitivity Fold: 0.432 RNAsubopt: 0.217 Positive Predictive Value Fold: 0.444 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs McQFold Matthews Correlation Coefficient Fold: 0.437 McQFold: 0.314 Sensitivity Fold: 0.432 McQFold: 0.205 Positive Predictive Value Fold: 0.444 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs TurboFold(20) Matthews Correlation Coefficient Fold: 0.437 TurboFold(20): 0.301 Sensitivity Fold: 0.432 TurboFold(20): 0.108 Positive Predictive Value Fold: 0.444 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs PPfold(20) Matthews Correlation Coefficient Fold: 0.437 PPfold(20): 0.298 Sensitivity Fold: 0.432 PPfold(20): 0.101 Positive Predictive Value Fold: 0.444 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RNAshapes Matthews Correlation Coefficient Fold: 0.437 RNAshapes: 0.295 Sensitivity Fold: 0.432 RNAshapes: 0.180 Positive Predictive Value Fold: 0.444 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Carnac(20) Matthews Correlation Coefficient Fold: 0.437 Carnac(20): 0.288 Sensitivity Fold: 0.432 Carnac(20): 0.093 Positive Predictive Value Fold: 0.444 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RNASLOpt Matthews Correlation Coefficient Fold: 0.437 RNASLOpt: 0.281 Sensitivity Fold: 0.432 RNASLOpt: 0.158 Positive Predictive Value Fold: 0.444 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RSpredict(20) Matthews Correlation Coefficient Fold: 0.437 RSpredict(20): 0.270 Sensitivity Fold: 0.432 RSpredict(20): 0.124 Positive Predictive Value Fold: 0.444 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Multilign(20) Matthews Correlation Coefficient Fold: 0.437 Multilign(20): 0.251 Sensitivity Fold: 0.432 Multilign(20): 0.083 Positive Predictive Value Fold: 0.444 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RNAwolf Matthews Correlation Coefficient Fold: 0.437 RNAwolf: 0.251 Sensitivity Fold: 0.432 RNAwolf: 0.191 Positive Predictive Value Fold: 0.444 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Murlet(20) Matthews Correlation Coefficient Fold: 0.437 Murlet(20): 0.230 Sensitivity Fold: 0.432 Murlet(20): 0.067 Positive Predictive Value Fold: 0.444 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Vsfold4 Matthews Correlation Coefficient Fold: 0.437 Vsfold4: 0.217 Sensitivity Fold: 0.432 Vsfold4: 0.125 Positive Predictive Value Fold: 0.444 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Vsfold5 Matthews Correlation Coefficient Fold: 0.437 Vsfold5: 0.211 Sensitivity Fold: 0.432 Vsfold5: 0.125 Positive Predictive Value Fold: 0.444 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RSpredict(seed) Matthews Correlation Coefficient Fold: 0.437 RSpredict(seed): 0.212 Sensitivity Fold: 0.432 RSpredict(seed): 0.075 Positive Predictive Value Fold: 0.444 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs CMfinder(20) Matthews Correlation Coefficient Fold: 0.437 CMfinder(20): 0.210 Sensitivity Fold: 0.432 CMfinder(20): 0.055 Positive Predictive Value Fold: 0.444 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs HotKnots Matthews Correlation Coefficient Fold: 0.437 HotKnots: 0.179 Sensitivity Fold: 0.432 HotKnots: 0.051 Positive Predictive Value Fold: 0.444 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RNASampler(20) Matthews Correlation Coefficient Fold: 0.437 RNASampler(20): 0.176 Sensitivity Fold: 0.432 RNASampler(20): 0.035 Positive Predictive Value Fold: 0.444 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Cylofold Matthews Correlation Coefficient Fold: 0.437 Cylofold: 0.155 Sensitivity Fold: 0.432 Cylofold: 0.040 Positive Predictive Value Fold: 0.444 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Pknots Matthews Correlation Coefficient Fold: 0.437 Pknots: 0.143 Sensitivity Fold: 0.432 Pknots: 0.033 Positive Predictive Value Fold: 0.444 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Mastr(20) Matthews Correlation Coefficient Fold: 0.437 Mastr(20): 0.134 Sensitivity Fold: 0.432 Mastr(20): 0.023 Positive Predictive Value Fold: 0.444 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Alterna Matthews Correlation Coefficient Fold: 0.437 Alterna: 0.129 Sensitivity Fold: 0.432 Alterna: 0.030 Positive Predictive Value Fold: 0.444 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs MCFold Matthews Correlation Coefficient Fold: 0.437 MCFold: 0.125 Sensitivity Fold: 0.432 MCFold: 0.036 Positive Predictive Value Fold: 0.444 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RDfolder Matthews Correlation Coefficient Fold: 0.437 RDfolder: 0.122 Sensitivity Fold: 0.432 RDfolder: 0.025 Positive Predictive Value Fold: 0.444 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Murlet(seed) Matthews Correlation Coefficient Fold: 0.437 Murlet(seed): 0.079 Sensitivity Fold: 0.432 Murlet(seed): 0.008 Positive Predictive Value Fold: 0.444 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs CMfinder(seed) Matthews Correlation Coefficient Fold: 0.437 CMfinder(seed): 0.080 Sensitivity Fold: 0.432 CMfinder(seed): 0.008 Positive Predictive Value Fold: 0.444 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs TurboFold(seed) Matthews Correlation Coefficient Fold: 0.437 TurboFold(seed): 0.076 Sensitivity Fold: 0.432 TurboFold(seed): 0.007 Positive Predictive Value Fold: 0.444 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs PPfold(seed) Matthews Correlation Coefficient Fold: 0.437 PPfold(seed): 0.069 Sensitivity Fold: 0.432 PPfold(seed): 0.006 Positive Predictive Value Fold: 0.444 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Carnac(seed) Matthews Correlation Coefficient Fold: 0.437 Carnac(seed): 0.066 Sensitivity Fold: 0.432 Carnac(seed): 0.005 Positive Predictive Value Fold: 0.444 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RNASampler(seed) Matthews Correlation Coefficient Fold: 0.437 RNASampler(seed): 0.063 Sensitivity Fold: 0.432 RNASampler(seed): 0.005 Positive Predictive Value Fold: 0.444 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs NanoFolder Matthews Correlation Coefficient Fold: 0.437 NanoFolder: 0.052 Sensitivity Fold: 0.432 NanoFolder: 0.016 Positive Predictive Value Fold: 0.444 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Mastr(seed) Matthews Correlation Coefficient Fold: 0.437 Mastr(seed): 0.051 Sensitivity Fold: 0.432 Mastr(seed): 0.003 Positive Predictive Value Fold: 0.444 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Multilign(seed) Matthews Correlation Coefficient Fold: 0.437 Multilign(seed): 0.043 Sensitivity Fold: 0.432 Multilign(seed): 0.003 Positive Predictive Value Fold: 0.444 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
RNAfold	1987 ContextFold vs RNAfold Matthews Correlation Coefficient ContextFold: 0.680 RNAfold: 0.429 Sensitivity ContextFold: 0.644 RNAfold: 0.422 Positive Predictive Value ContextFold: 0.718 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs RNAfold Matthews Correlation Coefficient IPknot: 0.548 RNAfold: 0.429 Sensitivity IPknot: 0.475 RNAfold: 0.422 Positive Predictive Value IPknot: 0.632 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs RNAfold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RNAfold: 0.429 Sensitivity PETfold_pre2.0(seed): 0.343 RNAfold: 0.422 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs RNAfold Matthews Correlation Coefficient Contrafold: 0.508 RNAfold: 0.429 Sensitivity Contrafold: 0.481 RNAfold: 0.422 Positive Predictive Value Contrafold: 0.537 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs RNAfold Matthews Correlation Coefficient CentroidFold: 0.470 RNAfold: 0.429 Sensitivity CentroidFold: 0.369 RNAfold: 0.422 Positive Predictive Value CentroidFold: 0.600 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs RNAfold Matthews Correlation Coefficient Sfold: 0.469 RNAfold: 0.429 Sensitivity Sfold: 0.412 RNAfold: 0.422 Positive Predictive Value Sfold: 0.535 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs RNAfold Matthews Correlation Coefficient MaxExpect: 0.465 RNAfold: 0.429 Sensitivity MaxExpect: 0.443 RNAfold: 0.422 Positive Predictive Value MaxExpect: 0.488 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs RNAfold Matthews Correlation Coefficient ProbKnot: 0.460 RNAfold: 0.429 Sensitivity ProbKnot: 0.446 RNAfold: 0.422 Positive Predictive Value ProbKnot: 0.475 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs RNAfold Matthews Correlation Coefficient UNAFold: 0.445 RNAfold: 0.429 Sensitivity UNAFold: 0.445 RNAfold: 0.422 Positive Predictive Value UNAFold: 0.446 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs RNAfold Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RNAfold: 0.429 Sensitivity CentroidAlifold(seed): 0.213 RNAfold: 0.422 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.85233844192e-08	1987 Fold vs RNAfold Matthews Correlation Coefficient Fold: 0.437 RNAfold: 0.429 Sensitivity Fold: 0.432 RNAfold: 0.422 Positive Predictive Value Fold: 0.444 RNAfold: 0.437 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ RNAfold vs CentroidHomfold‑LAST Matthews Correlation Coefficient RNAfold: 0.429 CentroidHomfold‑LAST: 0.428 Sensitivity RNAfold: 0.422 CentroidHomfold‑LAST: 0.216 Positive Predictive Value RNAfold: 0.437 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.000639955457467	+ RNAfold vs PETfold_pre2.0(20) Matthews Correlation Coefficient RNAfold: 0.429 PETfold_pre2.0(20): 0.413 Sensitivity RNAfold: 0.422 PETfold_pre2.0(20): 0.211 Positive Predictive Value RNAfold: 0.437 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs CentroidAlifold(20) Matthews Correlation Coefficient RNAfold: 0.429 CentroidAlifold(20): 0.411 Sensitivity RNAfold: 0.422 CentroidAlifold(20): 0.190 Positive Predictive Value RNAfold: 0.437 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs PknotsRG Matthews Correlation Coefficient RNAfold: 0.429 PknotsRG: 0.386 Sensitivity RNAfold: 0.422 PknotsRG: 0.320 Positive Predictive Value RNAfold: 0.437 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs MXScarna(seed) Matthews Correlation Coefficient RNAfold: 0.429 MXScarna(seed): 0.385 Sensitivity RNAfold: 0.422 MXScarna(seed): 0.196 Positive Predictive Value RNAfold: 0.437 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RNAalifold(20) Matthews Correlation Coefficient RNAfold: 0.429 RNAalifold(20): 0.381 Sensitivity RNAfold: 0.422 RNAalifold(20): 0.185 Positive Predictive Value RNAfold: 0.437 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RNAalifold(seed) Matthews Correlation Coefficient RNAfold: 0.429 RNAalifold(seed): 0.375 Sensitivity RNAfold: 0.422 RNAalifold(seed): 0.169 Positive Predictive Value RNAfold: 0.437 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Afold Matthews Correlation Coefficient RNAfold: 0.429 Afold: 0.358 Sensitivity RNAfold: 0.422 Afold: 0.295 Positive Predictive Value RNAfold: 0.437 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs MXScarna(20) Matthews Correlation Coefficient RNAfold: 0.429 MXScarna(20): 0.359 Sensitivity RNAfold: 0.422 MXScarna(20): 0.181 Positive Predictive Value RNAfold: 0.437 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs CRWrnafold Matthews Correlation Coefficient RNAfold: 0.429 CRWrnafold: 0.346 Sensitivity RNAfold: 0.422 CRWrnafold: 0.275 Positive Predictive Value RNAfold: 0.437 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RNAsubopt Matthews Correlation Coefficient RNAfold: 0.429 RNAsubopt: 0.336 Sensitivity RNAfold: 0.422 RNAsubopt: 0.217 Positive Predictive Value RNAfold: 0.437 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs McQFold Matthews Correlation Coefficient RNAfold: 0.429 McQFold: 0.314 Sensitivity RNAfold: 0.422 McQFold: 0.205 Positive Predictive Value RNAfold: 0.437 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs TurboFold(20) Matthews Correlation Coefficient RNAfold: 0.429 TurboFold(20): 0.301 Sensitivity RNAfold: 0.422 TurboFold(20): 0.108 Positive Predictive Value RNAfold: 0.437 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs PPfold(20) Matthews Correlation Coefficient RNAfold: 0.429 PPfold(20): 0.298 Sensitivity RNAfold: 0.422 PPfold(20): 0.101 Positive Predictive Value RNAfold: 0.437 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RNAshapes Matthews Correlation Coefficient RNAfold: 0.429 RNAshapes: 0.295 Sensitivity RNAfold: 0.422 RNAshapes: 0.180 Positive Predictive Value RNAfold: 0.437 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Carnac(20) Matthews Correlation Coefficient RNAfold: 0.429 Carnac(20): 0.288 Sensitivity RNAfold: 0.422 Carnac(20): 0.093 Positive Predictive Value RNAfold: 0.437 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RNASLOpt Matthews Correlation Coefficient RNAfold: 0.429 RNASLOpt: 0.281 Sensitivity RNAfold: 0.422 RNASLOpt: 0.158 Positive Predictive Value RNAfold: 0.437 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RSpredict(20) Matthews Correlation Coefficient RNAfold: 0.429 RSpredict(20): 0.270 Sensitivity RNAfold: 0.422 RSpredict(20): 0.124 Positive Predictive Value RNAfold: 0.437 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Multilign(20) Matthews Correlation Coefficient RNAfold: 0.429 Multilign(20): 0.251 Sensitivity RNAfold: 0.422 Multilign(20): 0.083 Positive Predictive Value RNAfold: 0.437 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RNAwolf Matthews Correlation Coefficient RNAfold: 0.429 RNAwolf: 0.251 Sensitivity RNAfold: 0.422 RNAwolf: 0.191 Positive Predictive Value RNAfold: 0.437 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Murlet(20) Matthews Correlation Coefficient RNAfold: 0.429 Murlet(20): 0.230 Sensitivity RNAfold: 0.422 Murlet(20): 0.067 Positive Predictive Value RNAfold: 0.437 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Vsfold4 Matthews Correlation Coefficient RNAfold: 0.429 Vsfold4: 0.217 Sensitivity RNAfold: 0.422 Vsfold4: 0.125 Positive Predictive Value RNAfold: 0.437 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Vsfold5 Matthews Correlation Coefficient RNAfold: 0.429 Vsfold5: 0.211 Sensitivity RNAfold: 0.422 Vsfold5: 0.125 Positive Predictive Value RNAfold: 0.437 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RSpredict(seed) Matthews Correlation Coefficient RNAfold: 0.429 RSpredict(seed): 0.212 Sensitivity RNAfold: 0.422 RSpredict(seed): 0.075 Positive Predictive Value RNAfold: 0.437 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs CMfinder(20) Matthews Correlation Coefficient RNAfold: 0.429 CMfinder(20): 0.210 Sensitivity RNAfold: 0.422 CMfinder(20): 0.055 Positive Predictive Value RNAfold: 0.437 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs HotKnots Matthews Correlation Coefficient RNAfold: 0.429 HotKnots: 0.179 Sensitivity RNAfold: 0.422 HotKnots: 0.051 Positive Predictive Value RNAfold: 0.437 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RNASampler(20) Matthews Correlation Coefficient RNAfold: 0.429 RNASampler(20): 0.176 Sensitivity RNAfold: 0.422 RNASampler(20): 0.035 Positive Predictive Value RNAfold: 0.437 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Cylofold Matthews Correlation Coefficient RNAfold: 0.429 Cylofold: 0.155 Sensitivity RNAfold: 0.422 Cylofold: 0.040 Positive Predictive Value RNAfold: 0.437 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Pknots Matthews Correlation Coefficient RNAfold: 0.429 Pknots: 0.143 Sensitivity RNAfold: 0.422 Pknots: 0.033 Positive Predictive Value RNAfold: 0.437 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Mastr(20) Matthews Correlation Coefficient RNAfold: 0.429 Mastr(20): 0.134 Sensitivity RNAfold: 0.422 Mastr(20): 0.023 Positive Predictive Value RNAfold: 0.437 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Alterna Matthews Correlation Coefficient RNAfold: 0.429 Alterna: 0.129 Sensitivity RNAfold: 0.422 Alterna: 0.030 Positive Predictive Value RNAfold: 0.437 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs MCFold Matthews Correlation Coefficient RNAfold: 0.429 MCFold: 0.125 Sensitivity RNAfold: 0.422 MCFold: 0.036 Positive Predictive Value RNAfold: 0.437 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RDfolder Matthews Correlation Coefficient RNAfold: 0.429 RDfolder: 0.122 Sensitivity RNAfold: 0.422 RDfolder: 0.025 Positive Predictive Value RNAfold: 0.437 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Murlet(seed) Matthews Correlation Coefficient RNAfold: 0.429 Murlet(seed): 0.079 Sensitivity RNAfold: 0.422 Murlet(seed): 0.008 Positive Predictive Value RNAfold: 0.437 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs CMfinder(seed) Matthews Correlation Coefficient RNAfold: 0.429 CMfinder(seed): 0.080 Sensitivity RNAfold: 0.422 CMfinder(seed): 0.008 Positive Predictive Value RNAfold: 0.437 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs TurboFold(seed) Matthews Correlation Coefficient RNAfold: 0.429 TurboFold(seed): 0.076 Sensitivity RNAfold: 0.422 TurboFold(seed): 0.007 Positive Predictive Value RNAfold: 0.437 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs PPfold(seed) Matthews Correlation Coefficient RNAfold: 0.429 PPfold(seed): 0.069 Sensitivity RNAfold: 0.422 PPfold(seed): 0.006 Positive Predictive Value RNAfold: 0.437 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Carnac(seed) Matthews Correlation Coefficient RNAfold: 0.429 Carnac(seed): 0.066 Sensitivity RNAfold: 0.422 Carnac(seed): 0.005 Positive Predictive Value RNAfold: 0.437 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RNASampler(seed) Matthews Correlation Coefficient RNAfold: 0.429 RNASampler(seed): 0.063 Sensitivity RNAfold: 0.422 RNASampler(seed): 0.005 Positive Predictive Value RNAfold: 0.437 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs NanoFolder Matthews Correlation Coefficient RNAfold: 0.429 NanoFolder: 0.052 Sensitivity RNAfold: 0.422 NanoFolder: 0.016 Positive Predictive Value RNAfold: 0.437 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Mastr(seed) Matthews Correlation Coefficient RNAfold: 0.429 Mastr(seed): 0.051 Sensitivity RNAfold: 0.422 Mastr(seed): 0.003 Positive Predictive Value RNAfold: 0.437 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Multilign(seed) Matthews Correlation Coefficient RNAfold: 0.429 Multilign(seed): 0.043 Sensitivity RNAfold: 0.422 Multilign(seed): 0.003 Positive Predictive Value RNAfold: 0.437 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
CentroidHomfold‑LAST	1987 ContextFold vs CentroidHomfold‑LAST Matthews Correlation Coefficient ContextFold: 0.680 CentroidHomfold‑LAST: 0.428 Sensitivity ContextFold: 0.644 CentroidHomfold‑LAST: 0.216 Positive Predictive Value ContextFold: 0.718 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs CentroidHomfold‑LAST Matthews Correlation Coefficient IPknot: 0.548 CentroidHomfold‑LAST: 0.428 Sensitivity IPknot: 0.475 CentroidHomfold‑LAST: 0.216 Positive Predictive Value IPknot: 0.632 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs CentroidHomfold‑LAST Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 CentroidHomfold‑LAST: 0.428 Sensitivity PETfold_pre2.0(seed): 0.343 CentroidHomfold‑LAST: 0.216 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs CentroidHomfold‑LAST Matthews Correlation Coefficient Contrafold: 0.508 CentroidHomfold‑LAST: 0.428 Sensitivity Contrafold: 0.481 CentroidHomfold‑LAST: 0.216 Positive Predictive Value Contrafold: 0.537 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs CentroidHomfold‑LAST Matthews Correlation Coefficient CentroidFold: 0.470 CentroidHomfold‑LAST: 0.428 Sensitivity CentroidFold: 0.369 CentroidHomfold‑LAST: 0.216 Positive Predictive Value CentroidFold: 0.600 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs CentroidHomfold‑LAST Matthews Correlation Coefficient Sfold: 0.469 CentroidHomfold‑LAST: 0.428 Sensitivity Sfold: 0.412 CentroidHomfold‑LAST: 0.216 Positive Predictive Value Sfold: 0.535 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs CentroidHomfold‑LAST Matthews Correlation Coefficient MaxExpect: 0.465 CentroidHomfold‑LAST: 0.428 Sensitivity MaxExpect: 0.443 CentroidHomfold‑LAST: 0.216 Positive Predictive Value MaxExpect: 0.488 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs CentroidHomfold‑LAST Matthews Correlation Coefficient ProbKnot: 0.460 CentroidHomfold‑LAST: 0.428 Sensitivity ProbKnot: 0.446 CentroidHomfold‑LAST: 0.216 Positive Predictive Value ProbKnot: 0.475 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs CentroidHomfold‑LAST Matthews Correlation Coefficient UNAFold: 0.445 CentroidHomfold‑LAST: 0.428 Sensitivity UNAFold: 0.445 CentroidHomfold‑LAST: 0.216 Positive Predictive Value UNAFold: 0.446 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs CentroidHomfold‑LAST Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 CentroidHomfold‑LAST: 0.428 Sensitivity CentroidAlifold(seed): 0.213 CentroidHomfold‑LAST: 0.216 Positive Predictive Value CentroidAlifold(seed): 0.901 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 6.53888633552e-08	1987 Fold vs CentroidHomfold‑LAST Matthews Correlation Coefficient Fold: 0.437 CentroidHomfold‑LAST: 0.428 Sensitivity Fold: 0.432 CentroidHomfold‑LAST: 0.216 Positive Predictive Value Fold: 0.444 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs CentroidHomfold‑LAST Matthews Correlation Coefficient RNAfold: 0.429 CentroidHomfold‑LAST: 0.428 Sensitivity RNAfold: 0.422 CentroidHomfold‑LAST: 0.216 Positive Predictive Value RNAfold: 0.437 CentroidHomfold‑LAST: 0.850 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.000639955457467		+ CentroidHomfold‑LAST vs PETfold_pre2.0(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 PETfold_pre2.0(20): 0.413 Sensitivity CentroidHomfold‑LAST: 0.216 PETfold_pre2.0(20): 0.211 Positive Predictive Value CentroidHomfold‑LAST: 0.850 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs CentroidAlifold(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 CentroidAlifold(20): 0.411 Sensitivity CentroidHomfold‑LAST: 0.216 CentroidAlifold(20): 0.190 Positive Predictive Value CentroidHomfold‑LAST: 0.850 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs PknotsRG Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 PknotsRG: 0.386 Sensitivity CentroidHomfold‑LAST: 0.216 PknotsRG: 0.320 Positive Predictive Value CentroidHomfold‑LAST: 0.850 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs MXScarna(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 MXScarna(seed): 0.385 Sensitivity CentroidHomfold‑LAST: 0.216 MXScarna(seed): 0.196 Positive Predictive Value CentroidHomfold‑LAST: 0.850 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RNAalifold(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RNAalifold(20): 0.381 Sensitivity CentroidHomfold‑LAST: 0.216 RNAalifold(20): 0.185 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RNAalifold(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RNAalifold(seed): 0.375 Sensitivity CentroidHomfold‑LAST: 0.216 RNAalifold(seed): 0.169 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Afold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Afold: 0.358 Sensitivity CentroidHomfold‑LAST: 0.216 Afold: 0.295 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs MXScarna(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 MXScarna(20): 0.359 Sensitivity CentroidHomfold‑LAST: 0.216 MXScarna(20): 0.181 Positive Predictive Value CentroidHomfold‑LAST: 0.850 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs CRWrnafold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 CRWrnafold: 0.346 Sensitivity CentroidHomfold‑LAST: 0.216 CRWrnafold: 0.275 Positive Predictive Value CentroidHomfold‑LAST: 0.850 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RNAsubopt Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RNAsubopt: 0.336 Sensitivity CentroidHomfold‑LAST: 0.216 RNAsubopt: 0.217 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs McQFold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 McQFold: 0.314 Sensitivity CentroidHomfold‑LAST: 0.216 McQFold: 0.205 Positive Predictive Value CentroidHomfold‑LAST: 0.850 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs TurboFold(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 TurboFold(20): 0.301 Sensitivity CentroidHomfold‑LAST: 0.216 TurboFold(20): 0.108 Positive Predictive Value CentroidHomfold‑LAST: 0.850 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs PPfold(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 PPfold(20): 0.298 Sensitivity CentroidHomfold‑LAST: 0.216 PPfold(20): 0.101 Positive Predictive Value CentroidHomfold‑LAST: 0.850 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RNAshapes Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RNAshapes: 0.295 Sensitivity CentroidHomfold‑LAST: 0.216 RNAshapes: 0.180 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Carnac(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Carnac(20): 0.288 Sensitivity CentroidHomfold‑LAST: 0.216 Carnac(20): 0.093 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RNASLOpt Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RNASLOpt: 0.281 Sensitivity CentroidHomfold‑LAST: 0.216 RNASLOpt: 0.158 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RSpredict(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RSpredict(20): 0.270 Sensitivity CentroidHomfold‑LAST: 0.216 RSpredict(20): 0.124 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Multilign(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Multilign(20): 0.251 Sensitivity CentroidHomfold‑LAST: 0.216 Multilign(20): 0.083 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RNAwolf Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RNAwolf: 0.251 Sensitivity CentroidHomfold‑LAST: 0.216 RNAwolf: 0.191 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Murlet(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Murlet(20): 0.230 Sensitivity CentroidHomfold‑LAST: 0.216 Murlet(20): 0.067 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Vsfold4 Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Vsfold4: 0.217 Sensitivity CentroidHomfold‑LAST: 0.216 Vsfold4: 0.125 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Vsfold5 Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Vsfold5: 0.211 Sensitivity CentroidHomfold‑LAST: 0.216 Vsfold5: 0.125 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RSpredict(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RSpredict(seed): 0.212 Sensitivity CentroidHomfold‑LAST: 0.216 RSpredict(seed): 0.075 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs CMfinder(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 CMfinder(20): 0.210 Sensitivity CentroidHomfold‑LAST: 0.216 CMfinder(20): 0.055 Positive Predictive Value CentroidHomfold‑LAST: 0.850 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs HotKnots Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 HotKnots: 0.179 Sensitivity CentroidHomfold‑LAST: 0.216 HotKnots: 0.051 Positive Predictive Value CentroidHomfold‑LAST: 0.850 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RNASampler(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RNASampler(20): 0.176 Sensitivity CentroidHomfold‑LAST: 0.216 RNASampler(20): 0.035 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Cylofold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Cylofold: 0.155 Sensitivity CentroidHomfold‑LAST: 0.216 Cylofold: 0.040 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Pknots Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Pknots: 0.143 Sensitivity CentroidHomfold‑LAST: 0.216 Pknots: 0.033 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Mastr(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Mastr(20): 0.134 Sensitivity CentroidHomfold‑LAST: 0.216 Mastr(20): 0.023 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Alterna Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Alterna: 0.129 Sensitivity CentroidHomfold‑LAST: 0.216 Alterna: 0.030 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs MCFold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 MCFold: 0.125 Sensitivity CentroidHomfold‑LAST: 0.216 MCFold: 0.036 Positive Predictive Value CentroidHomfold‑LAST: 0.850 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RDfolder Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RDfolder: 0.122 Sensitivity CentroidHomfold‑LAST: 0.216 RDfolder: 0.025 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Murlet(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Murlet(seed): 0.079 Sensitivity CentroidHomfold‑LAST: 0.216 Murlet(seed): 0.008 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs CMfinder(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 CMfinder(seed): 0.080 Sensitivity CentroidHomfold‑LAST: 0.216 CMfinder(seed): 0.008 Positive Predictive Value CentroidHomfold‑LAST: 0.850 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs TurboFold(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 TurboFold(seed): 0.076 Sensitivity CentroidHomfold‑LAST: 0.216 TurboFold(seed): 0.007 Positive Predictive Value CentroidHomfold‑LAST: 0.850 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs PPfold(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 PPfold(seed): 0.069 Sensitivity CentroidHomfold‑LAST: 0.216 PPfold(seed): 0.006 Positive Predictive Value CentroidHomfold‑LAST: 0.850 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Carnac(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Carnac(seed): 0.066 Sensitivity CentroidHomfold‑LAST: 0.216 Carnac(seed): 0.005 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RNASampler(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RNASampler(seed): 0.063 Sensitivity CentroidHomfold‑LAST: 0.216 RNASampler(seed): 0.005 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs NanoFolder Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 NanoFolder: 0.052 Sensitivity CentroidHomfold‑LAST: 0.216 NanoFolder: 0.016 Positive Predictive Value CentroidHomfold‑LAST: 0.850 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Mastr(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Mastr(seed): 0.051 Sensitivity CentroidHomfold‑LAST: 0.216 Mastr(seed): 0.003 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Multilign(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Multilign(seed): 0.043 Sensitivity CentroidHomfold‑LAST: 0.216 Multilign(seed): 0.003 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
PETfold_pre2.0(20)	1987 ContextFold vs PETfold_pre2.0(20) Matthews Correlation Coefficient ContextFold: 0.680 PETfold_pre2.0(20): 0.413 Sensitivity ContextFold: 0.644 PETfold_pre2.0(20): 0.211 Positive Predictive Value ContextFold: 0.718 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs PETfold_pre2.0(20) Matthews Correlation Coefficient IPknot: 0.548 PETfold_pre2.0(20): 0.413 Sensitivity IPknot: 0.475 PETfold_pre2.0(20): 0.211 Positive Predictive Value IPknot: 0.632 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs PETfold_pre2.0(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 PETfold_pre2.0(20): 0.413 Sensitivity PETfold_pre2.0(seed): 0.343 PETfold_pre2.0(20): 0.211 Positive Predictive Value PETfold_pre2.0(seed): 0.814 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs PETfold_pre2.0(20) Matthews Correlation Coefficient Contrafold: 0.508 PETfold_pre2.0(20): 0.413 Sensitivity Contrafold: 0.481 PETfold_pre2.0(20): 0.211 Positive Predictive Value Contrafold: 0.537 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs PETfold_pre2.0(20) Matthews Correlation Coefficient CentroidFold: 0.470 PETfold_pre2.0(20): 0.413 Sensitivity CentroidFold: 0.369 PETfold_pre2.0(20): 0.211 Positive Predictive Value CentroidFold: 0.600 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs PETfold_pre2.0(20) Matthews Correlation Coefficient Sfold: 0.469 PETfold_pre2.0(20): 0.413 Sensitivity Sfold: 0.412 PETfold_pre2.0(20): 0.211 Positive Predictive Value Sfold: 0.535 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs PETfold_pre2.0(20) Matthews Correlation Coefficient MaxExpect: 0.465 PETfold_pre2.0(20): 0.413 Sensitivity MaxExpect: 0.443 PETfold_pre2.0(20): 0.211 Positive Predictive Value MaxExpect: 0.488 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs PETfold_pre2.0(20) Matthews Correlation Coefficient ProbKnot: 0.460 PETfold_pre2.0(20): 0.413 Sensitivity ProbKnot: 0.446 PETfold_pre2.0(20): 0.211 Positive Predictive Value ProbKnot: 0.475 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs PETfold_pre2.0(20) Matthews Correlation Coefficient UNAFold: 0.445 PETfold_pre2.0(20): 0.413 Sensitivity UNAFold: 0.445 PETfold_pre2.0(20): 0.211 Positive Predictive Value UNAFold: 0.446 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs PETfold_pre2.0(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 PETfold_pre2.0(20): 0.413 Sensitivity CentroidAlifold(seed): 0.213 PETfold_pre2.0(20): 0.211 Positive Predictive Value CentroidAlifold(seed): 0.901 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs PETfold_pre2.0(20) Matthews Correlation Coefficient Fold: 0.437 PETfold_pre2.0(20): 0.413 Sensitivity Fold: 0.432 PETfold_pre2.0(20): 0.211 Positive Predictive Value Fold: 0.444 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs PETfold_pre2.0(20) Matthews Correlation Coefficient RNAfold: 0.429 PETfold_pre2.0(20): 0.413 Sensitivity RNAfold: 0.422 PETfold_pre2.0(20): 0.211 Positive Predictive Value RNAfold: 0.437 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs PETfold_pre2.0(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 PETfold_pre2.0(20): 0.413 Sensitivity CentroidHomfold‑LAST: 0.216 PETfold_pre2.0(20): 0.211 Positive Predictive Value CentroidHomfold‑LAST: 0.850 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ PETfold_pre2.0(20) vs CentroidAlifold(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 CentroidAlifold(20): 0.411 Sensitivity PETfold_pre2.0(20): 0.211 CentroidAlifold(20): 0.190 Positive Predictive Value PETfold_pre2.0(20): 0.807 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs PknotsRG Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 PknotsRG: 0.386 Sensitivity PETfold_pre2.0(20): 0.211 PknotsRG: 0.320 Positive Predictive Value PETfold_pre2.0(20): 0.807 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs MXScarna(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 MXScarna(seed): 0.385 Sensitivity PETfold_pre2.0(20): 0.211 MXScarna(seed): 0.196 Positive Predictive Value PETfold_pre2.0(20): 0.807 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RNAalifold(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RNAalifold(20): 0.381 Sensitivity PETfold_pre2.0(20): 0.211 RNAalifold(20): 0.185 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RNAalifold(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RNAalifold(seed): 0.375 Sensitivity PETfold_pre2.0(20): 0.211 RNAalifold(seed): 0.169 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Afold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Afold: 0.358 Sensitivity PETfold_pre2.0(20): 0.211 Afold: 0.295 Positive Predictive Value PETfold_pre2.0(20): 0.807 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs MXScarna(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 MXScarna(20): 0.359 Sensitivity PETfold_pre2.0(20): 0.211 MXScarna(20): 0.181 Positive Predictive Value PETfold_pre2.0(20): 0.807 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs CRWrnafold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 CRWrnafold: 0.346 Sensitivity PETfold_pre2.0(20): 0.211 CRWrnafold: 0.275 Positive Predictive Value PETfold_pre2.0(20): 0.807 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RNAsubopt Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RNAsubopt: 0.336 Sensitivity PETfold_pre2.0(20): 0.211 RNAsubopt: 0.217 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs McQFold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 McQFold: 0.314 Sensitivity PETfold_pre2.0(20): 0.211 McQFold: 0.205 Positive Predictive Value PETfold_pre2.0(20): 0.807 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs TurboFold(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 TurboFold(20): 0.301 Sensitivity PETfold_pre2.0(20): 0.211 TurboFold(20): 0.108 Positive Predictive Value PETfold_pre2.0(20): 0.807 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs PPfold(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 PPfold(20): 0.298 Sensitivity PETfold_pre2.0(20): 0.211 PPfold(20): 0.101 Positive Predictive Value PETfold_pre2.0(20): 0.807 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RNAshapes Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RNAshapes: 0.295 Sensitivity PETfold_pre2.0(20): 0.211 RNAshapes: 0.180 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Carnac(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Carnac(20): 0.288 Sensitivity PETfold_pre2.0(20): 0.211 Carnac(20): 0.093 Positive Predictive Value PETfold_pre2.0(20): 0.807 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RNASLOpt Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RNASLOpt: 0.281 Sensitivity PETfold_pre2.0(20): 0.211 RNASLOpt: 0.158 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RSpredict(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RSpredict(20): 0.270 Sensitivity PETfold_pre2.0(20): 0.211 RSpredict(20): 0.124 Positive Predictive Value PETfold_pre2.0(20): 0.807 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Multilign(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Multilign(20): 0.251 Sensitivity PETfold_pre2.0(20): 0.211 Multilign(20): 0.083 Positive Predictive Value PETfold_pre2.0(20): 0.807 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RNAwolf Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RNAwolf: 0.251 Sensitivity PETfold_pre2.0(20): 0.211 RNAwolf: 0.191 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Murlet(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Murlet(20): 0.230 Sensitivity PETfold_pre2.0(20): 0.211 Murlet(20): 0.067 Positive Predictive Value PETfold_pre2.0(20): 0.807 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Vsfold4 Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Vsfold4: 0.217 Sensitivity PETfold_pre2.0(20): 0.211 Vsfold4: 0.125 Positive Predictive Value PETfold_pre2.0(20): 0.807 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Vsfold5 Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Vsfold5: 0.211 Sensitivity PETfold_pre2.0(20): 0.211 Vsfold5: 0.125 Positive Predictive Value PETfold_pre2.0(20): 0.807 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RSpredict(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RSpredict(seed): 0.212 Sensitivity PETfold_pre2.0(20): 0.211 RSpredict(seed): 0.075 Positive Predictive Value PETfold_pre2.0(20): 0.807 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs CMfinder(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 CMfinder(20): 0.210 Sensitivity PETfold_pre2.0(20): 0.211 CMfinder(20): 0.055 Positive Predictive Value PETfold_pre2.0(20): 0.807 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs HotKnots Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 HotKnots: 0.179 Sensitivity PETfold_pre2.0(20): 0.211 HotKnots: 0.051 Positive Predictive Value PETfold_pre2.0(20): 0.807 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RNASampler(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RNASampler(20): 0.176 Sensitivity PETfold_pre2.0(20): 0.211 RNASampler(20): 0.035 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Cylofold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Cylofold: 0.155 Sensitivity PETfold_pre2.0(20): 0.211 Cylofold: 0.040 Positive Predictive Value PETfold_pre2.0(20): 0.807 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Pknots Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Pknots: 0.143 Sensitivity PETfold_pre2.0(20): 0.211 Pknots: 0.033 Positive Predictive Value PETfold_pre2.0(20): 0.807 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Mastr(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Mastr(20): 0.134 Sensitivity PETfold_pre2.0(20): 0.211 Mastr(20): 0.023 Positive Predictive Value PETfold_pre2.0(20): 0.807 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Alterna Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Alterna: 0.129 Sensitivity PETfold_pre2.0(20): 0.211 Alterna: 0.030 Positive Predictive Value PETfold_pre2.0(20): 0.807 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs MCFold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 MCFold: 0.125 Sensitivity PETfold_pre2.0(20): 0.211 MCFold: 0.036 Positive Predictive Value PETfold_pre2.0(20): 0.807 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RDfolder Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RDfolder: 0.122 Sensitivity PETfold_pre2.0(20): 0.211 RDfolder: 0.025 Positive Predictive Value PETfold_pre2.0(20): 0.807 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Murlet(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Murlet(seed): 0.079 Sensitivity PETfold_pre2.0(20): 0.211 Murlet(seed): 0.008 Positive Predictive Value PETfold_pre2.0(20): 0.807 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs CMfinder(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 CMfinder(seed): 0.080 Sensitivity PETfold_pre2.0(20): 0.211 CMfinder(seed): 0.008 Positive Predictive Value PETfold_pre2.0(20): 0.807 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs TurboFold(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 TurboFold(seed): 0.076 Sensitivity PETfold_pre2.0(20): 0.211 TurboFold(seed): 0.007 Positive Predictive Value PETfold_pre2.0(20): 0.807 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs PPfold(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 PPfold(seed): 0.069 Sensitivity PETfold_pre2.0(20): 0.211 PPfold(seed): 0.006 Positive Predictive Value PETfold_pre2.0(20): 0.807 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Carnac(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Carnac(seed): 0.066 Sensitivity PETfold_pre2.0(20): 0.211 Carnac(seed): 0.005 Positive Predictive Value PETfold_pre2.0(20): 0.807 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RNASampler(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RNASampler(seed): 0.063 Sensitivity PETfold_pre2.0(20): 0.211 RNASampler(seed): 0.005 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs NanoFolder Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 NanoFolder: 0.052 Sensitivity PETfold_pre2.0(20): 0.211 NanoFolder: 0.016 Positive Predictive Value PETfold_pre2.0(20): 0.807 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Mastr(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Mastr(seed): 0.051 Sensitivity PETfold_pre2.0(20): 0.211 Mastr(seed): 0.003 Positive Predictive Value PETfold_pre2.0(20): 0.807 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Multilign(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Multilign(seed): 0.043 Sensitivity PETfold_pre2.0(20): 0.211 Multilign(seed): 0.003 Positive Predictive Value PETfold_pre2.0(20): 0.807 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
CentroidAlifold(20)	1987 ContextFold vs CentroidAlifold(20) Matthews Correlation Coefficient ContextFold: 0.680 CentroidAlifold(20): 0.411 Sensitivity ContextFold: 0.644 CentroidAlifold(20): 0.190 Positive Predictive Value ContextFold: 0.718 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs CentroidAlifold(20) Matthews Correlation Coefficient IPknot: 0.548 CentroidAlifold(20): 0.411 Sensitivity IPknot: 0.475 CentroidAlifold(20): 0.190 Positive Predictive Value IPknot: 0.632 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs CentroidAlifold(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 CentroidAlifold(20): 0.411 Sensitivity PETfold_pre2.0(seed): 0.343 CentroidAlifold(20): 0.190 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs CentroidAlifold(20) Matthews Correlation Coefficient Contrafold: 0.508 CentroidAlifold(20): 0.411 Sensitivity Contrafold: 0.481 CentroidAlifold(20): 0.190 Positive Predictive Value Contrafold: 0.537 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs CentroidAlifold(20) Matthews Correlation Coefficient CentroidFold: 0.470 CentroidAlifold(20): 0.411 Sensitivity CentroidFold: 0.369 CentroidAlifold(20): 0.190 Positive Predictive Value CentroidFold: 0.600 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs CentroidAlifold(20) Matthews Correlation Coefficient Sfold: 0.469 CentroidAlifold(20): 0.411 Sensitivity Sfold: 0.412 CentroidAlifold(20): 0.190 Positive Predictive Value Sfold: 0.535 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs CentroidAlifold(20) Matthews Correlation Coefficient MaxExpect: 0.465 CentroidAlifold(20): 0.411 Sensitivity MaxExpect: 0.443 CentroidAlifold(20): 0.190 Positive Predictive Value MaxExpect: 0.488 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs CentroidAlifold(20) Matthews Correlation Coefficient ProbKnot: 0.460 CentroidAlifold(20): 0.411 Sensitivity ProbKnot: 0.446 CentroidAlifold(20): 0.190 Positive Predictive Value ProbKnot: 0.475 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs CentroidAlifold(20) Matthews Correlation Coefficient UNAFold: 0.445 CentroidAlifold(20): 0.411 Sensitivity UNAFold: 0.445 CentroidAlifold(20): 0.190 Positive Predictive Value UNAFold: 0.446 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs CentroidAlifold(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 CentroidAlifold(20): 0.411 Sensitivity CentroidAlifold(seed): 0.213 CentroidAlifold(20): 0.190 Positive Predictive Value CentroidAlifold(seed): 0.901 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs CentroidAlifold(20) Matthews Correlation Coefficient Fold: 0.437 CentroidAlifold(20): 0.411 Sensitivity Fold: 0.432 CentroidAlifold(20): 0.190 Positive Predictive Value Fold: 0.444 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs CentroidAlifold(20) Matthews Correlation Coefficient RNAfold: 0.429 CentroidAlifold(20): 0.411 Sensitivity RNAfold: 0.422 CentroidAlifold(20): 0.190 Positive Predictive Value RNAfold: 0.437 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs CentroidAlifold(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 CentroidAlifold(20): 0.411 Sensitivity CentroidHomfold‑LAST: 0.216 CentroidAlifold(20): 0.190 Positive Predictive Value CentroidHomfold‑LAST: 0.850 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs CentroidAlifold(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 CentroidAlifold(20): 0.411 Sensitivity PETfold_pre2.0(20): 0.211 CentroidAlifold(20): 0.190 Positive Predictive Value PETfold_pre2.0(20): 0.807 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ CentroidAlifold(20) vs PknotsRG Matthews Correlation Coefficient CentroidAlifold(20): 0.411 PknotsRG: 0.386 Sensitivity CentroidAlifold(20): 0.190 PknotsRG: 0.320 Positive Predictive Value CentroidAlifold(20): 0.891 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs MXScarna(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 MXScarna(seed): 0.385 Sensitivity CentroidAlifold(20): 0.190 MXScarna(seed): 0.196 Positive Predictive Value CentroidAlifold(20): 0.891 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RNAalifold(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RNAalifold(20): 0.381 Sensitivity CentroidAlifold(20): 0.190 RNAalifold(20): 0.185 Positive Predictive Value CentroidAlifold(20): 0.891 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RNAalifold(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RNAalifold(seed): 0.375 Sensitivity CentroidAlifold(20): 0.190 RNAalifold(seed): 0.169 Positive Predictive Value CentroidAlifold(20): 0.891 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Afold Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Afold: 0.358 Sensitivity CentroidAlifold(20): 0.190 Afold: 0.295 Positive Predictive Value CentroidAlifold(20): 0.891 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs MXScarna(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 MXScarna(20): 0.359 Sensitivity CentroidAlifold(20): 0.190 MXScarna(20): 0.181 Positive Predictive Value CentroidAlifold(20): 0.891 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs CRWrnafold Matthews Correlation Coefficient CentroidAlifold(20): 0.411 CRWrnafold: 0.346 Sensitivity CentroidAlifold(20): 0.190 CRWrnafold: 0.275 Positive Predictive Value CentroidAlifold(20): 0.891 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RNAsubopt Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RNAsubopt: 0.336 Sensitivity CentroidAlifold(20): 0.190 RNAsubopt: 0.217 Positive Predictive Value CentroidAlifold(20): 0.891 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs McQFold Matthews Correlation Coefficient CentroidAlifold(20): 0.411 McQFold: 0.314 Sensitivity CentroidAlifold(20): 0.190 McQFold: 0.205 Positive Predictive Value CentroidAlifold(20): 0.891 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs TurboFold(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 TurboFold(20): 0.301 Sensitivity CentroidAlifold(20): 0.190 TurboFold(20): 0.108 Positive Predictive Value CentroidAlifold(20): 0.891 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs PPfold(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 PPfold(20): 0.298 Sensitivity CentroidAlifold(20): 0.190 PPfold(20): 0.101 Positive Predictive Value CentroidAlifold(20): 0.891 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RNAshapes Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RNAshapes: 0.295 Sensitivity CentroidAlifold(20): 0.190 RNAshapes: 0.180 Positive Predictive Value CentroidAlifold(20): 0.891 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Carnac(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Carnac(20): 0.288 Sensitivity CentroidAlifold(20): 0.190 Carnac(20): 0.093 Positive Predictive Value CentroidAlifold(20): 0.891 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RNASLOpt Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RNASLOpt: 0.281 Sensitivity CentroidAlifold(20): 0.190 RNASLOpt: 0.158 Positive Predictive Value CentroidAlifold(20): 0.891 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RSpredict(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RSpredict(20): 0.270 Sensitivity CentroidAlifold(20): 0.190 RSpredict(20): 0.124 Positive Predictive Value CentroidAlifold(20): 0.891 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Multilign(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Multilign(20): 0.251 Sensitivity CentroidAlifold(20): 0.190 Multilign(20): 0.083 Positive Predictive Value CentroidAlifold(20): 0.891 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RNAwolf Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RNAwolf: 0.251 Sensitivity CentroidAlifold(20): 0.190 RNAwolf: 0.191 Positive Predictive Value CentroidAlifold(20): 0.891 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Murlet(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Murlet(20): 0.230 Sensitivity CentroidAlifold(20): 0.190 Murlet(20): 0.067 Positive Predictive Value CentroidAlifold(20): 0.891 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Vsfold4 Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Vsfold4: 0.217 Sensitivity CentroidAlifold(20): 0.190 Vsfold4: 0.125 Positive Predictive Value CentroidAlifold(20): 0.891 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Vsfold5 Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Vsfold5: 0.211 Sensitivity CentroidAlifold(20): 0.190 Vsfold5: 0.125 Positive Predictive Value CentroidAlifold(20): 0.891 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RSpredict(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RSpredict(seed): 0.212 Sensitivity CentroidAlifold(20): 0.190 RSpredict(seed): 0.075 Positive Predictive Value CentroidAlifold(20): 0.891 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs CMfinder(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 CMfinder(20): 0.210 Sensitivity CentroidAlifold(20): 0.190 CMfinder(20): 0.055 Positive Predictive Value CentroidAlifold(20): 0.891 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs HotKnots Matthews Correlation Coefficient CentroidAlifold(20): 0.411 HotKnots: 0.179 Sensitivity CentroidAlifold(20): 0.190 HotKnots: 0.051 Positive Predictive Value CentroidAlifold(20): 0.891 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RNASampler(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RNASampler(20): 0.176 Sensitivity CentroidAlifold(20): 0.190 RNASampler(20): 0.035 Positive Predictive Value CentroidAlifold(20): 0.891 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Cylofold Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Cylofold: 0.155 Sensitivity CentroidAlifold(20): 0.190 Cylofold: 0.040 Positive Predictive Value CentroidAlifold(20): 0.891 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Pknots Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Pknots: 0.143 Sensitivity CentroidAlifold(20): 0.190 Pknots: 0.033 Positive Predictive Value CentroidAlifold(20): 0.891 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Mastr(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Mastr(20): 0.134 Sensitivity CentroidAlifold(20): 0.190 Mastr(20): 0.023 Positive Predictive Value CentroidAlifold(20): 0.891 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Alterna Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Alterna: 0.129 Sensitivity CentroidAlifold(20): 0.190 Alterna: 0.030 Positive Predictive Value CentroidAlifold(20): 0.891 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs MCFold Matthews Correlation Coefficient CentroidAlifold(20): 0.411 MCFold: 0.125 Sensitivity CentroidAlifold(20): 0.190 MCFold: 0.036 Positive Predictive Value CentroidAlifold(20): 0.891 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RDfolder Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RDfolder: 0.122 Sensitivity CentroidAlifold(20): 0.190 RDfolder: 0.025 Positive Predictive Value CentroidAlifold(20): 0.891 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Murlet(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Murlet(seed): 0.079 Sensitivity CentroidAlifold(20): 0.190 Murlet(seed): 0.008 Positive Predictive Value CentroidAlifold(20): 0.891 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs CMfinder(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 CMfinder(seed): 0.080 Sensitivity CentroidAlifold(20): 0.190 CMfinder(seed): 0.008 Positive Predictive Value CentroidAlifold(20): 0.891 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs TurboFold(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 TurboFold(seed): 0.076 Sensitivity CentroidAlifold(20): 0.190 TurboFold(seed): 0.007 Positive Predictive Value CentroidAlifold(20): 0.891 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs PPfold(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 PPfold(seed): 0.069 Sensitivity CentroidAlifold(20): 0.190 PPfold(seed): 0.006 Positive Predictive Value CentroidAlifold(20): 0.891 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Carnac(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Carnac(seed): 0.066 Sensitivity CentroidAlifold(20): 0.190 Carnac(seed): 0.005 Positive Predictive Value CentroidAlifold(20): 0.891 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RNASampler(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RNASampler(seed): 0.063 Sensitivity CentroidAlifold(20): 0.190 RNASampler(seed): 0.005 Positive Predictive Value CentroidAlifold(20): 0.891 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs NanoFolder Matthews Correlation Coefficient CentroidAlifold(20): 0.411 NanoFolder: 0.052 Sensitivity CentroidAlifold(20): 0.190 NanoFolder: 0.016 Positive Predictive Value CentroidAlifold(20): 0.891 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Mastr(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Mastr(seed): 0.051 Sensitivity CentroidAlifold(20): 0.190 Mastr(seed): 0.003 Positive Predictive Value CentroidAlifold(20): 0.891 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Multilign(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Multilign(seed): 0.043 Sensitivity CentroidAlifold(20): 0.190 Multilign(seed): 0.003 Positive Predictive Value CentroidAlifold(20): 0.891 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
PknotsRG	1987 ContextFold vs PknotsRG Matthews Correlation Coefficient ContextFold: 0.680 PknotsRG: 0.386 Sensitivity ContextFold: 0.644 PknotsRG: 0.320 Positive Predictive Value ContextFold: 0.718 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs PknotsRG Matthews Correlation Coefficient IPknot: 0.548 PknotsRG: 0.386 Sensitivity IPknot: 0.475 PknotsRG: 0.320 Positive Predictive Value IPknot: 0.632 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs PknotsRG Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 PknotsRG: 0.386 Sensitivity PETfold_pre2.0(seed): 0.343 PknotsRG: 0.320 Positive Predictive Value PETfold_pre2.0(seed): 0.814 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs PknotsRG Matthews Correlation Coefficient Contrafold: 0.508 PknotsRG: 0.386 Sensitivity Contrafold: 0.481 PknotsRG: 0.320 Positive Predictive Value Contrafold: 0.537 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs PknotsRG Matthews Correlation Coefficient CentroidFold: 0.470 PknotsRG: 0.386 Sensitivity CentroidFold: 0.369 PknotsRG: 0.320 Positive Predictive Value CentroidFold: 0.600 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs PknotsRG Matthews Correlation Coefficient Sfold: 0.469 PknotsRG: 0.386 Sensitivity Sfold: 0.412 PknotsRG: 0.320 Positive Predictive Value Sfold: 0.535 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs PknotsRG Matthews Correlation Coefficient MaxExpect: 0.465 PknotsRG: 0.386 Sensitivity MaxExpect: 0.443 PknotsRG: 0.320 Positive Predictive Value MaxExpect: 0.488 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs PknotsRG Matthews Correlation Coefficient ProbKnot: 0.460 PknotsRG: 0.386 Sensitivity ProbKnot: 0.446 PknotsRG: 0.320 Positive Predictive Value ProbKnot: 0.475 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs PknotsRG Matthews Correlation Coefficient UNAFold: 0.445 PknotsRG: 0.386 Sensitivity UNAFold: 0.445 PknotsRG: 0.320 Positive Predictive Value UNAFold: 0.446 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs PknotsRG Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 PknotsRG: 0.386 Sensitivity CentroidAlifold(seed): 0.213 PknotsRG: 0.320 Positive Predictive Value CentroidAlifold(seed): 0.901 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs PknotsRG Matthews Correlation Coefficient Fold: 0.437 PknotsRG: 0.386 Sensitivity Fold: 0.432 PknotsRG: 0.320 Positive Predictive Value Fold: 0.444 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs PknotsRG Matthews Correlation Coefficient RNAfold: 0.429 PknotsRG: 0.386 Sensitivity RNAfold: 0.422 PknotsRG: 0.320 Positive Predictive Value RNAfold: 0.437 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs PknotsRG Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 PknotsRG: 0.386 Sensitivity CentroidHomfold‑LAST: 0.216 PknotsRG: 0.320 Positive Predictive Value CentroidHomfold‑LAST: 0.850 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs PknotsRG Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 PknotsRG: 0.386 Sensitivity PETfold_pre2.0(20): 0.211 PknotsRG: 0.320 Positive Predictive Value PETfold_pre2.0(20): 0.807 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs PknotsRG Matthews Correlation Coefficient CentroidAlifold(20): 0.411 PknotsRG: 0.386 Sensitivity CentroidAlifold(20): 0.190 PknotsRG: 0.320 Positive Predictive Value CentroidAlifold(20): 0.891 PknotsRG: 0.465 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		= PknotsRG vs MXScarna(seed) Matthews Correlation Coefficient PknotsRG: 0.386 MXScarna(seed): 0.385 Sensitivity PknotsRG: 0.320 MXScarna(seed): 0.196 Positive Predictive Value PknotsRG: 0.465 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.978553375983	+ PknotsRG vs RNAalifold(20) Matthews Correlation Coefficient PknotsRG: 0.386 RNAalifold(20): 0.381 Sensitivity PknotsRG: 0.320 RNAalifold(20): 0.185 Positive Predictive Value PknotsRG: 0.465 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 8.1815824276e-08	+ PknotsRG vs RNAalifold(seed) Matthews Correlation Coefficient PknotsRG: 0.386 RNAalifold(seed): 0.375 Sensitivity PknotsRG: 0.320 RNAalifold(seed): 0.169 Positive Predictive Value PknotsRG: 0.465 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Afold Matthews Correlation Coefficient PknotsRG: 0.386 Afold: 0.358 Sensitivity PknotsRG: 0.320 Afold: 0.295 Positive Predictive Value PknotsRG: 0.465 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs MXScarna(20) Matthews Correlation Coefficient PknotsRG: 0.386 MXScarna(20): 0.359 Sensitivity PknotsRG: 0.320 MXScarna(20): 0.181 Positive Predictive Value PknotsRG: 0.465 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs CRWrnafold Matthews Correlation Coefficient PknotsRG: 0.386 CRWrnafold: 0.346 Sensitivity PknotsRG: 0.320 CRWrnafold: 0.275 Positive Predictive Value PknotsRG: 0.465 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs RNAsubopt Matthews Correlation Coefficient PknotsRG: 0.386 RNAsubopt: 0.336 Sensitivity PknotsRG: 0.320 RNAsubopt: 0.217 Positive Predictive Value PknotsRG: 0.465 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs McQFold Matthews Correlation Coefficient PknotsRG: 0.386 McQFold: 0.314 Sensitivity PknotsRG: 0.320 McQFold: 0.205 Positive Predictive Value PknotsRG: 0.465 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs TurboFold(20) Matthews Correlation Coefficient PknotsRG: 0.386 TurboFold(20): 0.301 Sensitivity PknotsRG: 0.320 TurboFold(20): 0.108 Positive Predictive Value PknotsRG: 0.465 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs PPfold(20) Matthews Correlation Coefficient PknotsRG: 0.386 PPfold(20): 0.298 Sensitivity PknotsRG: 0.320 PPfold(20): 0.101 Positive Predictive Value PknotsRG: 0.465 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs RNAshapes Matthews Correlation Coefficient PknotsRG: 0.386 RNAshapes: 0.295 Sensitivity PknotsRG: 0.320 RNAshapes: 0.180 Positive Predictive Value PknotsRG: 0.465 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Carnac(20) Matthews Correlation Coefficient PknotsRG: 0.386 Carnac(20): 0.288 Sensitivity PknotsRG: 0.320 Carnac(20): 0.093 Positive Predictive Value PknotsRG: 0.465 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs RNASLOpt Matthews Correlation Coefficient PknotsRG: 0.386 RNASLOpt: 0.281 Sensitivity PknotsRG: 0.320 RNASLOpt: 0.158 Positive Predictive Value PknotsRG: 0.465 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs RSpredict(20) Matthews Correlation Coefficient PknotsRG: 0.386 RSpredict(20): 0.270 Sensitivity PknotsRG: 0.320 RSpredict(20): 0.124 Positive Predictive Value PknotsRG: 0.465 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Multilign(20) Matthews Correlation Coefficient PknotsRG: 0.386 Multilign(20): 0.251 Sensitivity PknotsRG: 0.320 Multilign(20): 0.083 Positive Predictive Value PknotsRG: 0.465 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs RNAwolf Matthews Correlation Coefficient PknotsRG: 0.386 RNAwolf: 0.251 Sensitivity PknotsRG: 0.320 RNAwolf: 0.191 Positive Predictive Value PknotsRG: 0.465 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Murlet(20) Matthews Correlation Coefficient PknotsRG: 0.386 Murlet(20): 0.230 Sensitivity PknotsRG: 0.320 Murlet(20): 0.067 Positive Predictive Value PknotsRG: 0.465 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Vsfold4 Matthews Correlation Coefficient PknotsRG: 0.386 Vsfold4: 0.217 Sensitivity PknotsRG: 0.320 Vsfold4: 0.125 Positive Predictive Value PknotsRG: 0.465 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Vsfold5 Matthews Correlation Coefficient PknotsRG: 0.386 Vsfold5: 0.211 Sensitivity PknotsRG: 0.320 Vsfold5: 0.125 Positive Predictive Value PknotsRG: 0.465 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs RSpredict(seed) Matthews Correlation Coefficient PknotsRG: 0.386 RSpredict(seed): 0.212 Sensitivity PknotsRG: 0.320 RSpredict(seed): 0.075 Positive Predictive Value PknotsRG: 0.465 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs CMfinder(20) Matthews Correlation Coefficient PknotsRG: 0.386 CMfinder(20): 0.210 Sensitivity PknotsRG: 0.320 CMfinder(20): 0.055 Positive Predictive Value PknotsRG: 0.465 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs HotKnots Matthews Correlation Coefficient PknotsRG: 0.386 HotKnots: 0.179 Sensitivity PknotsRG: 0.320 HotKnots: 0.051 Positive Predictive Value PknotsRG: 0.465 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs RNASampler(20) Matthews Correlation Coefficient PknotsRG: 0.386 RNASampler(20): 0.176 Sensitivity PknotsRG: 0.320 RNASampler(20): 0.035 Positive Predictive Value PknotsRG: 0.465 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Cylofold Matthews Correlation Coefficient PknotsRG: 0.386 Cylofold: 0.155 Sensitivity PknotsRG: 0.320 Cylofold: 0.040 Positive Predictive Value PknotsRG: 0.465 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Pknots Matthews Correlation Coefficient PknotsRG: 0.386 Pknots: 0.143 Sensitivity PknotsRG: 0.320 Pknots: 0.033 Positive Predictive Value PknotsRG: 0.465 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Mastr(20) Matthews Correlation Coefficient PknotsRG: 0.386 Mastr(20): 0.134 Sensitivity PknotsRG: 0.320 Mastr(20): 0.023 Positive Predictive Value PknotsRG: 0.465 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Alterna Matthews Correlation Coefficient PknotsRG: 0.386 Alterna: 0.129 Sensitivity PknotsRG: 0.320 Alterna: 0.030 Positive Predictive Value PknotsRG: 0.465 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs MCFold Matthews Correlation Coefficient PknotsRG: 0.386 MCFold: 0.125 Sensitivity PknotsRG: 0.320 MCFold: 0.036 Positive Predictive Value PknotsRG: 0.465 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs RDfolder Matthews Correlation Coefficient PknotsRG: 0.386 RDfolder: 0.122 Sensitivity PknotsRG: 0.320 RDfolder: 0.025 Positive Predictive Value PknotsRG: 0.465 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Murlet(seed) Matthews Correlation Coefficient PknotsRG: 0.386 Murlet(seed): 0.079 Sensitivity PknotsRG: 0.320 Murlet(seed): 0.008 Positive Predictive Value PknotsRG: 0.465 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs CMfinder(seed) Matthews Correlation Coefficient PknotsRG: 0.386 CMfinder(seed): 0.080 Sensitivity PknotsRG: 0.320 CMfinder(seed): 0.008 Positive Predictive Value PknotsRG: 0.465 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs TurboFold(seed) Matthews Correlation Coefficient PknotsRG: 0.386 TurboFold(seed): 0.076 Sensitivity PknotsRG: 0.320 TurboFold(seed): 0.007 Positive Predictive Value PknotsRG: 0.465 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs PPfold(seed) Matthews Correlation Coefficient PknotsRG: 0.386 PPfold(seed): 0.069 Sensitivity PknotsRG: 0.320 PPfold(seed): 0.006 Positive Predictive Value PknotsRG: 0.465 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Carnac(seed) Matthews Correlation Coefficient PknotsRG: 0.386 Carnac(seed): 0.066 Sensitivity PknotsRG: 0.320 Carnac(seed): 0.005 Positive Predictive Value PknotsRG: 0.465 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs RNASampler(seed) Matthews Correlation Coefficient PknotsRG: 0.386 RNASampler(seed): 0.063 Sensitivity PknotsRG: 0.320 RNASampler(seed): 0.005 Positive Predictive Value PknotsRG: 0.465 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs NanoFolder Matthews Correlation Coefficient PknotsRG: 0.386 NanoFolder: 0.052 Sensitivity PknotsRG: 0.320 NanoFolder: 0.016 Positive Predictive Value PknotsRG: 0.465 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Mastr(seed) Matthews Correlation Coefficient PknotsRG: 0.386 Mastr(seed): 0.051 Sensitivity PknotsRG: 0.320 Mastr(seed): 0.003 Positive Predictive Value PknotsRG: 0.465 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Multilign(seed) Matthews Correlation Coefficient PknotsRG: 0.386 Multilign(seed): 0.043 Sensitivity PknotsRG: 0.320 Multilign(seed): 0.003 Positive Predictive Value PknotsRG: 0.465 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
MXScarna(seed)	1987 ContextFold vs MXScarna(seed) Matthews Correlation Coefficient ContextFold: 0.680 MXScarna(seed): 0.385 Sensitivity ContextFold: 0.644 MXScarna(seed): 0.196 Positive Predictive Value ContextFold: 0.718 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs MXScarna(seed) Matthews Correlation Coefficient IPknot: 0.548 MXScarna(seed): 0.385 Sensitivity IPknot: 0.475 MXScarna(seed): 0.196 Positive Predictive Value IPknot: 0.632 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs MXScarna(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 MXScarna(seed): 0.385 Sensitivity PETfold_pre2.0(seed): 0.343 MXScarna(seed): 0.196 Positive Predictive Value PETfold_pre2.0(seed): 0.814 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs MXScarna(seed) Matthews Correlation Coefficient Contrafold: 0.508 MXScarna(seed): 0.385 Sensitivity Contrafold: 0.481 MXScarna(seed): 0.196 Positive Predictive Value Contrafold: 0.537 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs MXScarna(seed) Matthews Correlation Coefficient CentroidFold: 0.470 MXScarna(seed): 0.385 Sensitivity CentroidFold: 0.369 MXScarna(seed): 0.196 Positive Predictive Value CentroidFold: 0.600 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs MXScarna(seed) Matthews Correlation Coefficient Sfold: 0.469 MXScarna(seed): 0.385 Sensitivity Sfold: 0.412 MXScarna(seed): 0.196 Positive Predictive Value Sfold: 0.535 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs MXScarna(seed) Matthews Correlation Coefficient MaxExpect: 0.465 MXScarna(seed): 0.385 Sensitivity MaxExpect: 0.443 MXScarna(seed): 0.196 Positive Predictive Value MaxExpect: 0.488 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs MXScarna(seed) Matthews Correlation Coefficient ProbKnot: 0.460 MXScarna(seed): 0.385 Sensitivity ProbKnot: 0.446 MXScarna(seed): 0.196 Positive Predictive Value ProbKnot: 0.475 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs MXScarna(seed) Matthews Correlation Coefficient UNAFold: 0.445 MXScarna(seed): 0.385 Sensitivity UNAFold: 0.445 MXScarna(seed): 0.196 Positive Predictive Value UNAFold: 0.446 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs MXScarna(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 MXScarna(seed): 0.385 Sensitivity CentroidAlifold(seed): 0.213 MXScarna(seed): 0.196 Positive Predictive Value CentroidAlifold(seed): 0.901 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs MXScarna(seed) Matthews Correlation Coefficient Fold: 0.437 MXScarna(seed): 0.385 Sensitivity Fold: 0.432 MXScarna(seed): 0.196 Positive Predictive Value Fold: 0.444 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs MXScarna(seed) Matthews Correlation Coefficient RNAfold: 0.429 MXScarna(seed): 0.385 Sensitivity RNAfold: 0.422 MXScarna(seed): 0.196 Positive Predictive Value RNAfold: 0.437 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs MXScarna(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 MXScarna(seed): 0.385 Sensitivity CentroidHomfold‑LAST: 0.216 MXScarna(seed): 0.196 Positive Predictive Value CentroidHomfold‑LAST: 0.850 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs MXScarna(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 MXScarna(seed): 0.385 Sensitivity PETfold_pre2.0(20): 0.211 MXScarna(seed): 0.196 Positive Predictive Value PETfold_pre2.0(20): 0.807 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs MXScarna(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 MXScarna(seed): 0.385 Sensitivity CentroidAlifold(20): 0.190 MXScarna(seed): 0.196 Positive Predictive Value CentroidAlifold(20): 0.891 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs MXScarna(seed) Matthews Correlation Coefficient PknotsRG: 0.386 MXScarna(seed): 0.385 Sensitivity PknotsRG: 0.320 MXScarna(seed): 0.196 Positive Predictive Value PknotsRG: 0.465 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.978553375983		+ MXScarna(seed) vs RNAalifold(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 RNAalifold(20): 0.381 Sensitivity MXScarna(seed): 0.196 RNAalifold(20): 0.185 Positive Predictive Value MXScarna(seed): 0.753 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RNAalifold(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 RNAalifold(seed): 0.375 Sensitivity MXScarna(seed): 0.196 RNAalifold(seed): 0.169 Positive Predictive Value MXScarna(seed): 0.753 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Afold Matthews Correlation Coefficient MXScarna(seed): 0.385 Afold: 0.358 Sensitivity MXScarna(seed): 0.196 Afold: 0.295 Positive Predictive Value MXScarna(seed): 0.753 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs MXScarna(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 MXScarna(20): 0.359 Sensitivity MXScarna(seed): 0.196 MXScarna(20): 0.181 Positive Predictive Value MXScarna(seed): 0.753 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs CRWrnafold Matthews Correlation Coefficient MXScarna(seed): 0.385 CRWrnafold: 0.346 Sensitivity MXScarna(seed): 0.196 CRWrnafold: 0.275 Positive Predictive Value MXScarna(seed): 0.753 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RNAsubopt Matthews Correlation Coefficient MXScarna(seed): 0.385 RNAsubopt: 0.336 Sensitivity MXScarna(seed): 0.196 RNAsubopt: 0.217 Positive Predictive Value MXScarna(seed): 0.753 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs McQFold Matthews Correlation Coefficient MXScarna(seed): 0.385 McQFold: 0.314 Sensitivity MXScarna(seed): 0.196 McQFold: 0.205 Positive Predictive Value MXScarna(seed): 0.753 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs TurboFold(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 TurboFold(20): 0.301 Sensitivity MXScarna(seed): 0.196 TurboFold(20): 0.108 Positive Predictive Value MXScarna(seed): 0.753 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs PPfold(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 PPfold(20): 0.298 Sensitivity MXScarna(seed): 0.196 PPfold(20): 0.101 Positive Predictive Value MXScarna(seed): 0.753 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RNAshapes Matthews Correlation Coefficient MXScarna(seed): 0.385 RNAshapes: 0.295 Sensitivity MXScarna(seed): 0.196 RNAshapes: 0.180 Positive Predictive Value MXScarna(seed): 0.753 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Carnac(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 Carnac(20): 0.288 Sensitivity MXScarna(seed): 0.196 Carnac(20): 0.093 Positive Predictive Value MXScarna(seed): 0.753 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RNASLOpt Matthews Correlation Coefficient MXScarna(seed): 0.385 RNASLOpt: 0.281 Sensitivity MXScarna(seed): 0.196 RNASLOpt: 0.158 Positive Predictive Value MXScarna(seed): 0.753 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RSpredict(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 RSpredict(20): 0.270 Sensitivity MXScarna(seed): 0.196 RSpredict(20): 0.124 Positive Predictive Value MXScarna(seed): 0.753 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Multilign(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 Multilign(20): 0.251 Sensitivity MXScarna(seed): 0.196 Multilign(20): 0.083 Positive Predictive Value MXScarna(seed): 0.753 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RNAwolf Matthews Correlation Coefficient MXScarna(seed): 0.385 RNAwolf: 0.251 Sensitivity MXScarna(seed): 0.196 RNAwolf: 0.191 Positive Predictive Value MXScarna(seed): 0.753 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Murlet(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 Murlet(20): 0.230 Sensitivity MXScarna(seed): 0.196 Murlet(20): 0.067 Positive Predictive Value MXScarna(seed): 0.753 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Vsfold4 Matthews Correlation Coefficient MXScarna(seed): 0.385 Vsfold4: 0.217 Sensitivity MXScarna(seed): 0.196 Vsfold4: 0.125 Positive Predictive Value MXScarna(seed): 0.753 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Vsfold5 Matthews Correlation Coefficient MXScarna(seed): 0.385 Vsfold5: 0.211 Sensitivity MXScarna(seed): 0.196 Vsfold5: 0.125 Positive Predictive Value MXScarna(seed): 0.753 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RSpredict(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 RSpredict(seed): 0.212 Sensitivity MXScarna(seed): 0.196 RSpredict(seed): 0.075 Positive Predictive Value MXScarna(seed): 0.753 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs CMfinder(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 CMfinder(20): 0.210 Sensitivity MXScarna(seed): 0.196 CMfinder(20): 0.055 Positive Predictive Value MXScarna(seed): 0.753 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs HotKnots Matthews Correlation Coefficient MXScarna(seed): 0.385 HotKnots: 0.179 Sensitivity MXScarna(seed): 0.196 HotKnots: 0.051 Positive Predictive Value MXScarna(seed): 0.753 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RNASampler(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 RNASampler(20): 0.176 Sensitivity MXScarna(seed): 0.196 RNASampler(20): 0.035 Positive Predictive Value MXScarna(seed): 0.753 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Cylofold Matthews Correlation Coefficient MXScarna(seed): 0.385 Cylofold: 0.155 Sensitivity MXScarna(seed): 0.196 Cylofold: 0.040 Positive Predictive Value MXScarna(seed): 0.753 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Pknots Matthews Correlation Coefficient MXScarna(seed): 0.385 Pknots: 0.143 Sensitivity MXScarna(seed): 0.196 Pknots: 0.033 Positive Predictive Value MXScarna(seed): 0.753 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Mastr(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 Mastr(20): 0.134 Sensitivity MXScarna(seed): 0.196 Mastr(20): 0.023 Positive Predictive Value MXScarna(seed): 0.753 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Alterna Matthews Correlation Coefficient MXScarna(seed): 0.385 Alterna: 0.129 Sensitivity MXScarna(seed): 0.196 Alterna: 0.030 Positive Predictive Value MXScarna(seed): 0.753 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs MCFold Matthews Correlation Coefficient MXScarna(seed): 0.385 MCFold: 0.125 Sensitivity MXScarna(seed): 0.196 MCFold: 0.036 Positive Predictive Value MXScarna(seed): 0.753 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RDfolder Matthews Correlation Coefficient MXScarna(seed): 0.385 RDfolder: 0.122 Sensitivity MXScarna(seed): 0.196 RDfolder: 0.025 Positive Predictive Value MXScarna(seed): 0.753 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Murlet(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 Murlet(seed): 0.079 Sensitivity MXScarna(seed): 0.196 Murlet(seed): 0.008 Positive Predictive Value MXScarna(seed): 0.753 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs CMfinder(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 CMfinder(seed): 0.080 Sensitivity MXScarna(seed): 0.196 CMfinder(seed): 0.008 Positive Predictive Value MXScarna(seed): 0.753 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs TurboFold(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 TurboFold(seed): 0.076 Sensitivity MXScarna(seed): 0.196 TurboFold(seed): 0.007 Positive Predictive Value MXScarna(seed): 0.753 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs PPfold(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 PPfold(seed): 0.069 Sensitivity MXScarna(seed): 0.196 PPfold(seed): 0.006 Positive Predictive Value MXScarna(seed): 0.753 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Carnac(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 Carnac(seed): 0.066 Sensitivity MXScarna(seed): 0.196 Carnac(seed): 0.005 Positive Predictive Value MXScarna(seed): 0.753 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RNASampler(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 RNASampler(seed): 0.063 Sensitivity MXScarna(seed): 0.196 RNASampler(seed): 0.005 Positive Predictive Value MXScarna(seed): 0.753 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs NanoFolder Matthews Correlation Coefficient MXScarna(seed): 0.385 NanoFolder: 0.052 Sensitivity MXScarna(seed): 0.196 NanoFolder: 0.016 Positive Predictive Value MXScarna(seed): 0.753 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Mastr(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 Mastr(seed): 0.051 Sensitivity MXScarna(seed): 0.196 Mastr(seed): 0.003 Positive Predictive Value MXScarna(seed): 0.753 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Multilign(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 Multilign(seed): 0.043 Sensitivity MXScarna(seed): 0.196 Multilign(seed): 0.003 Positive Predictive Value MXScarna(seed): 0.753 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
RNAalifold(20)	1987 ContextFold vs RNAalifold(20) Matthews Correlation Coefficient ContextFold: 0.680 RNAalifold(20): 0.381 Sensitivity ContextFold: 0.644 RNAalifold(20): 0.185 Positive Predictive Value ContextFold: 0.718 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs RNAalifold(20) Matthews Correlation Coefficient IPknot: 0.548 RNAalifold(20): 0.381 Sensitivity IPknot: 0.475 RNAalifold(20): 0.185 Positive Predictive Value IPknot: 0.632 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs RNAalifold(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RNAalifold(20): 0.381 Sensitivity PETfold_pre2.0(seed): 0.343 RNAalifold(20): 0.185 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs RNAalifold(20) Matthews Correlation Coefficient Contrafold: 0.508 RNAalifold(20): 0.381 Sensitivity Contrafold: 0.481 RNAalifold(20): 0.185 Positive Predictive Value Contrafold: 0.537 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs RNAalifold(20) Matthews Correlation Coefficient CentroidFold: 0.470 RNAalifold(20): 0.381 Sensitivity CentroidFold: 0.369 RNAalifold(20): 0.185 Positive Predictive Value CentroidFold: 0.600 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs RNAalifold(20) Matthews Correlation Coefficient Sfold: 0.469 RNAalifold(20): 0.381 Sensitivity Sfold: 0.412 RNAalifold(20): 0.185 Positive Predictive Value Sfold: 0.535 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs RNAalifold(20) Matthews Correlation Coefficient MaxExpect: 0.465 RNAalifold(20): 0.381 Sensitivity MaxExpect: 0.443 RNAalifold(20): 0.185 Positive Predictive Value MaxExpect: 0.488 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs RNAalifold(20) Matthews Correlation Coefficient ProbKnot: 0.460 RNAalifold(20): 0.381 Sensitivity ProbKnot: 0.446 RNAalifold(20): 0.185 Positive Predictive Value ProbKnot: 0.475 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs RNAalifold(20) Matthews Correlation Coefficient UNAFold: 0.445 RNAalifold(20): 0.381 Sensitivity UNAFold: 0.445 RNAalifold(20): 0.185 Positive Predictive Value UNAFold: 0.446 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs RNAalifold(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RNAalifold(20): 0.381 Sensitivity CentroidAlifold(seed): 0.213 RNAalifold(20): 0.185 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs RNAalifold(20) Matthews Correlation Coefficient Fold: 0.437 RNAalifold(20): 0.381 Sensitivity Fold: 0.432 RNAalifold(20): 0.185 Positive Predictive Value Fold: 0.444 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs RNAalifold(20) Matthews Correlation Coefficient RNAfold: 0.429 RNAalifold(20): 0.381 Sensitivity RNAfold: 0.422 RNAalifold(20): 0.185 Positive Predictive Value RNAfold: 0.437 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs RNAalifold(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RNAalifold(20): 0.381 Sensitivity CentroidHomfold‑LAST: 0.216 RNAalifold(20): 0.185 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs RNAalifold(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RNAalifold(20): 0.381 Sensitivity PETfold_pre2.0(20): 0.211 RNAalifold(20): 0.185 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs RNAalifold(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RNAalifold(20): 0.381 Sensitivity CentroidAlifold(20): 0.190 RNAalifold(20): 0.185 Positive Predictive Value CentroidAlifold(20): 0.891 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs RNAalifold(20) Matthews Correlation Coefficient PknotsRG: 0.386 RNAalifold(20): 0.381 Sensitivity PknotsRG: 0.320 RNAalifold(20): 0.185 Positive Predictive Value PknotsRG: 0.465 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 8.1815824276e-08	1987 MXScarna(seed) vs RNAalifold(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 RNAalifold(20): 0.381 Sensitivity MXScarna(seed): 0.196 RNAalifold(20): 0.185 Positive Predictive Value MXScarna(seed): 0.753 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ RNAalifold(20) vs RNAalifold(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 RNAalifold(seed): 0.375 Sensitivity RNAalifold(20): 0.185 RNAalifold(seed): 0.169 Positive Predictive Value RNAalifold(20): 0.787 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Afold Matthews Correlation Coefficient RNAalifold(20): 0.381 Afold: 0.358 Sensitivity RNAalifold(20): 0.185 Afold: 0.295 Positive Predictive Value RNAalifold(20): 0.787 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs MXScarna(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 MXScarna(20): 0.359 Sensitivity RNAalifold(20): 0.185 MXScarna(20): 0.181 Positive Predictive Value RNAalifold(20): 0.787 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs CRWrnafold Matthews Correlation Coefficient RNAalifold(20): 0.381 CRWrnafold: 0.346 Sensitivity RNAalifold(20): 0.185 CRWrnafold: 0.275 Positive Predictive Value RNAalifold(20): 0.787 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RNAsubopt Matthews Correlation Coefficient RNAalifold(20): 0.381 RNAsubopt: 0.336 Sensitivity RNAalifold(20): 0.185 RNAsubopt: 0.217 Positive Predictive Value RNAalifold(20): 0.787 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs McQFold Matthews Correlation Coefficient RNAalifold(20): 0.381 McQFold: 0.314 Sensitivity RNAalifold(20): 0.185 McQFold: 0.205 Positive Predictive Value RNAalifold(20): 0.787 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs TurboFold(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 TurboFold(20): 0.301 Sensitivity RNAalifold(20): 0.185 TurboFold(20): 0.108 Positive Predictive Value RNAalifold(20): 0.787 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs PPfold(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 PPfold(20): 0.298 Sensitivity RNAalifold(20): 0.185 PPfold(20): 0.101 Positive Predictive Value RNAalifold(20): 0.787 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RNAshapes Matthews Correlation Coefficient RNAalifold(20): 0.381 RNAshapes: 0.295 Sensitivity RNAalifold(20): 0.185 RNAshapes: 0.180 Positive Predictive Value RNAalifold(20): 0.787 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Carnac(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 Carnac(20): 0.288 Sensitivity RNAalifold(20): 0.185 Carnac(20): 0.093 Positive Predictive Value RNAalifold(20): 0.787 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RNASLOpt Matthews Correlation Coefficient RNAalifold(20): 0.381 RNASLOpt: 0.281 Sensitivity RNAalifold(20): 0.185 RNASLOpt: 0.158 Positive Predictive Value RNAalifold(20): 0.787 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RSpredict(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 RSpredict(20): 0.270 Sensitivity RNAalifold(20): 0.185 RSpredict(20): 0.124 Positive Predictive Value RNAalifold(20): 0.787 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Multilign(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 Multilign(20): 0.251 Sensitivity RNAalifold(20): 0.185 Multilign(20): 0.083 Positive Predictive Value RNAalifold(20): 0.787 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RNAwolf Matthews Correlation Coefficient RNAalifold(20): 0.381 RNAwolf: 0.251 Sensitivity RNAalifold(20): 0.185 RNAwolf: 0.191 Positive Predictive Value RNAalifold(20): 0.787 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Murlet(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 Murlet(20): 0.230 Sensitivity RNAalifold(20): 0.185 Murlet(20): 0.067 Positive Predictive Value RNAalifold(20): 0.787 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Vsfold4 Matthews Correlation Coefficient RNAalifold(20): 0.381 Vsfold4: 0.217 Sensitivity RNAalifold(20): 0.185 Vsfold4: 0.125 Positive Predictive Value RNAalifold(20): 0.787 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Vsfold5 Matthews Correlation Coefficient RNAalifold(20): 0.381 Vsfold5: 0.211 Sensitivity RNAalifold(20): 0.185 Vsfold5: 0.125 Positive Predictive Value RNAalifold(20): 0.787 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RSpredict(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 RSpredict(seed): 0.212 Sensitivity RNAalifold(20): 0.185 RSpredict(seed): 0.075 Positive Predictive Value RNAalifold(20): 0.787 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs CMfinder(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 CMfinder(20): 0.210 Sensitivity RNAalifold(20): 0.185 CMfinder(20): 0.055 Positive Predictive Value RNAalifold(20): 0.787 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs HotKnots Matthews Correlation Coefficient RNAalifold(20): 0.381 HotKnots: 0.179 Sensitivity RNAalifold(20): 0.185 HotKnots: 0.051 Positive Predictive Value RNAalifold(20): 0.787 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RNASampler(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 RNASampler(20): 0.176 Sensitivity RNAalifold(20): 0.185 RNASampler(20): 0.035 Positive Predictive Value RNAalifold(20): 0.787 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Cylofold Matthews Correlation Coefficient RNAalifold(20): 0.381 Cylofold: 0.155 Sensitivity RNAalifold(20): 0.185 Cylofold: 0.040 Positive Predictive Value RNAalifold(20): 0.787 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Pknots Matthews Correlation Coefficient RNAalifold(20): 0.381 Pknots: 0.143 Sensitivity RNAalifold(20): 0.185 Pknots: 0.033 Positive Predictive Value RNAalifold(20): 0.787 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Mastr(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 Mastr(20): 0.134 Sensitivity RNAalifold(20): 0.185 Mastr(20): 0.023 Positive Predictive Value RNAalifold(20): 0.787 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Alterna Matthews Correlation Coefficient RNAalifold(20): 0.381 Alterna: 0.129 Sensitivity RNAalifold(20): 0.185 Alterna: 0.030 Positive Predictive Value RNAalifold(20): 0.787 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs MCFold Matthews Correlation Coefficient RNAalifold(20): 0.381 MCFold: 0.125 Sensitivity RNAalifold(20): 0.185 MCFold: 0.036 Positive Predictive Value RNAalifold(20): 0.787 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RDfolder Matthews Correlation Coefficient RNAalifold(20): 0.381 RDfolder: 0.122 Sensitivity RNAalifold(20): 0.185 RDfolder: 0.025 Positive Predictive Value RNAalifold(20): 0.787 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Murlet(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 Murlet(seed): 0.079 Sensitivity RNAalifold(20): 0.185 Murlet(seed): 0.008 Positive Predictive Value RNAalifold(20): 0.787 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs CMfinder(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 CMfinder(seed): 0.080 Sensitivity RNAalifold(20): 0.185 CMfinder(seed): 0.008 Positive Predictive Value RNAalifold(20): 0.787 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs TurboFold(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 TurboFold(seed): 0.076 Sensitivity RNAalifold(20): 0.185 TurboFold(seed): 0.007 Positive Predictive Value RNAalifold(20): 0.787 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs PPfold(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 PPfold(seed): 0.069 Sensitivity RNAalifold(20): 0.185 PPfold(seed): 0.006 Positive Predictive Value RNAalifold(20): 0.787 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Carnac(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 Carnac(seed): 0.066 Sensitivity RNAalifold(20): 0.185 Carnac(seed): 0.005 Positive Predictive Value RNAalifold(20): 0.787 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RNASampler(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 RNASampler(seed): 0.063 Sensitivity RNAalifold(20): 0.185 RNASampler(seed): 0.005 Positive Predictive Value RNAalifold(20): 0.787 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs NanoFolder Matthews Correlation Coefficient RNAalifold(20): 0.381 NanoFolder: 0.052 Sensitivity RNAalifold(20): 0.185 NanoFolder: 0.016 Positive Predictive Value RNAalifold(20): 0.787 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Mastr(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 Mastr(seed): 0.051 Sensitivity RNAalifold(20): 0.185 Mastr(seed): 0.003 Positive Predictive Value RNAalifold(20): 0.787 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Multilign(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 Multilign(seed): 0.043 Sensitivity RNAalifold(20): 0.185 Multilign(seed): 0.003 Positive Predictive Value RNAalifold(20): 0.787 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
RNAalifold(seed)	1987 ContextFold vs RNAalifold(seed) Matthews Correlation Coefficient ContextFold: 0.680 RNAalifold(seed): 0.375 Sensitivity ContextFold: 0.644 RNAalifold(seed): 0.169 Positive Predictive Value ContextFold: 0.718 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs RNAalifold(seed) Matthews Correlation Coefficient IPknot: 0.548 RNAalifold(seed): 0.375 Sensitivity IPknot: 0.475 RNAalifold(seed): 0.169 Positive Predictive Value IPknot: 0.632 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs RNAalifold(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RNAalifold(seed): 0.375 Sensitivity PETfold_pre2.0(seed): 0.343 RNAalifold(seed): 0.169 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs RNAalifold(seed) Matthews Correlation Coefficient Contrafold: 0.508 RNAalifold(seed): 0.375 Sensitivity Contrafold: 0.481 RNAalifold(seed): 0.169 Positive Predictive Value Contrafold: 0.537 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs RNAalifold(seed) Matthews Correlation Coefficient CentroidFold: 0.470 RNAalifold(seed): 0.375 Sensitivity CentroidFold: 0.369 RNAalifold(seed): 0.169 Positive Predictive Value CentroidFold: 0.600 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs RNAalifold(seed) Matthews Correlation Coefficient Sfold: 0.469 RNAalifold(seed): 0.375 Sensitivity Sfold: 0.412 RNAalifold(seed): 0.169 Positive Predictive Value Sfold: 0.535 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs RNAalifold(seed) Matthews Correlation Coefficient MaxExpect: 0.465 RNAalifold(seed): 0.375 Sensitivity MaxExpect: 0.443 RNAalifold(seed): 0.169 Positive Predictive Value MaxExpect: 0.488 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs RNAalifold(seed) Matthews Correlation Coefficient ProbKnot: 0.460 RNAalifold(seed): 0.375 Sensitivity ProbKnot: 0.446 RNAalifold(seed): 0.169 Positive Predictive Value ProbKnot: 0.475 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs RNAalifold(seed) Matthews Correlation Coefficient UNAFold: 0.445 RNAalifold(seed): 0.375 Sensitivity UNAFold: 0.445 RNAalifold(seed): 0.169 Positive Predictive Value UNAFold: 0.446 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs RNAalifold(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RNAalifold(seed): 0.375 Sensitivity CentroidAlifold(seed): 0.213 RNAalifold(seed): 0.169 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs RNAalifold(seed) Matthews Correlation Coefficient Fold: 0.437 RNAalifold(seed): 0.375 Sensitivity Fold: 0.432 RNAalifold(seed): 0.169 Positive Predictive Value Fold: 0.444 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs RNAalifold(seed) Matthews Correlation Coefficient RNAfold: 0.429 RNAalifold(seed): 0.375 Sensitivity RNAfold: 0.422 RNAalifold(seed): 0.169 Positive Predictive Value RNAfold: 0.437 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs RNAalifold(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RNAalifold(seed): 0.375 Sensitivity CentroidHomfold‑LAST: 0.216 RNAalifold(seed): 0.169 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs RNAalifold(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RNAalifold(seed): 0.375 Sensitivity PETfold_pre2.0(20): 0.211 RNAalifold(seed): 0.169 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs RNAalifold(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RNAalifold(seed): 0.375 Sensitivity CentroidAlifold(20): 0.190 RNAalifold(seed): 0.169 Positive Predictive Value CentroidAlifold(20): 0.891 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs RNAalifold(seed) Matthews Correlation Coefficient PknotsRG: 0.386 RNAalifold(seed): 0.375 Sensitivity PknotsRG: 0.320 RNAalifold(seed): 0.169 Positive Predictive Value PknotsRG: 0.465 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs RNAalifold(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 RNAalifold(seed): 0.375 Sensitivity MXScarna(seed): 0.196 RNAalifold(seed): 0.169 Positive Predictive Value MXScarna(seed): 0.753 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs RNAalifold(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 RNAalifold(seed): 0.375 Sensitivity RNAalifold(20): 0.185 RNAalifold(seed): 0.169 Positive Predictive Value RNAalifold(20): 0.787 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ RNAalifold(seed) vs Afold Matthews Correlation Coefficient RNAalifold(seed): 0.375 Afold: 0.358 Sensitivity RNAalifold(seed): 0.169 Afold: 0.295 Positive Predictive Value RNAalifold(seed): 0.835 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs MXScarna(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 MXScarna(20): 0.359 Sensitivity RNAalifold(seed): 0.169 MXScarna(20): 0.181 Positive Predictive Value RNAalifold(seed): 0.835 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs CRWrnafold Matthews Correlation Coefficient RNAalifold(seed): 0.375 CRWrnafold: 0.346 Sensitivity RNAalifold(seed): 0.169 CRWrnafold: 0.275 Positive Predictive Value RNAalifold(seed): 0.835 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RNAsubopt Matthews Correlation Coefficient RNAalifold(seed): 0.375 RNAsubopt: 0.336 Sensitivity RNAalifold(seed): 0.169 RNAsubopt: 0.217 Positive Predictive Value RNAalifold(seed): 0.835 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs McQFold Matthews Correlation Coefficient RNAalifold(seed): 0.375 McQFold: 0.314 Sensitivity RNAalifold(seed): 0.169 McQFold: 0.205 Positive Predictive Value RNAalifold(seed): 0.835 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs TurboFold(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 TurboFold(20): 0.301 Sensitivity RNAalifold(seed): 0.169 TurboFold(20): 0.108 Positive Predictive Value RNAalifold(seed): 0.835 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs PPfold(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 PPfold(20): 0.298 Sensitivity RNAalifold(seed): 0.169 PPfold(20): 0.101 Positive Predictive Value RNAalifold(seed): 0.835 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RNAshapes Matthews Correlation Coefficient RNAalifold(seed): 0.375 RNAshapes: 0.295 Sensitivity RNAalifold(seed): 0.169 RNAshapes: 0.180 Positive Predictive Value RNAalifold(seed): 0.835 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Carnac(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 Carnac(20): 0.288 Sensitivity RNAalifold(seed): 0.169 Carnac(20): 0.093 Positive Predictive Value RNAalifold(seed): 0.835 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RNASLOpt Matthews Correlation Coefficient RNAalifold(seed): 0.375 RNASLOpt: 0.281 Sensitivity RNAalifold(seed): 0.169 RNASLOpt: 0.158 Positive Predictive Value RNAalifold(seed): 0.835 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RSpredict(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 RSpredict(20): 0.270 Sensitivity RNAalifold(seed): 0.169 RSpredict(20): 0.124 Positive Predictive Value RNAalifold(seed): 0.835 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Multilign(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 Multilign(20): 0.251 Sensitivity RNAalifold(seed): 0.169 Multilign(20): 0.083 Positive Predictive Value RNAalifold(seed): 0.835 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RNAwolf Matthews Correlation Coefficient RNAalifold(seed): 0.375 RNAwolf: 0.251 Sensitivity RNAalifold(seed): 0.169 RNAwolf: 0.191 Positive Predictive Value RNAalifold(seed): 0.835 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Murlet(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 Murlet(20): 0.230 Sensitivity RNAalifold(seed): 0.169 Murlet(20): 0.067 Positive Predictive Value RNAalifold(seed): 0.835 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Vsfold4 Matthews Correlation Coefficient RNAalifold(seed): 0.375 Vsfold4: 0.217 Sensitivity RNAalifold(seed): 0.169 Vsfold4: 0.125 Positive Predictive Value RNAalifold(seed): 0.835 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Vsfold5 Matthews Correlation Coefficient RNAalifold(seed): 0.375 Vsfold5: 0.211 Sensitivity RNAalifold(seed): 0.169 Vsfold5: 0.125 Positive Predictive Value RNAalifold(seed): 0.835 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RSpredict(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.375 RSpredict(seed): 0.212 Sensitivity RNAalifold(seed): 0.169 RSpredict(seed): 0.075 Positive Predictive Value RNAalifold(seed): 0.835 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs CMfinder(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 CMfinder(20): 0.210 Sensitivity RNAalifold(seed): 0.169 CMfinder(20): 0.055 Positive Predictive Value RNAalifold(seed): 0.835 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs HotKnots Matthews Correlation Coefficient RNAalifold(seed): 0.375 HotKnots: 0.179 Sensitivity RNAalifold(seed): 0.169 HotKnots: 0.051 Positive Predictive Value RNAalifold(seed): 0.835 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RNASampler(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 RNASampler(20): 0.176 Sensitivity RNAalifold(seed): 0.169 RNASampler(20): 0.035 Positive Predictive Value RNAalifold(seed): 0.835 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Cylofold Matthews Correlation Coefficient RNAalifold(seed): 0.375 Cylofold: 0.155 Sensitivity RNAalifold(seed): 0.169 Cylofold: 0.040 Positive Predictive Value RNAalifold(seed): 0.835 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Pknots Matthews Correlation Coefficient RNAalifold(seed): 0.375 Pknots: 0.143 Sensitivity RNAalifold(seed): 0.169 Pknots: 0.033 Positive Predictive Value RNAalifold(seed): 0.835 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Mastr(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 Mastr(20): 0.134 Sensitivity RNAalifold(seed): 0.169 Mastr(20): 0.023 Positive Predictive Value RNAalifold(seed): 0.835 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Alterna Matthews Correlation Coefficient RNAalifold(seed): 0.375 Alterna: 0.129 Sensitivity RNAalifold(seed): 0.169 Alterna: 0.030 Positive Predictive Value RNAalifold(seed): 0.835 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs MCFold Matthews Correlation Coefficient RNAalifold(seed): 0.375 MCFold: 0.125 Sensitivity RNAalifold(seed): 0.169 MCFold: 0.036 Positive Predictive Value RNAalifold(seed): 0.835 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RDfolder Matthews Correlation Coefficient RNAalifold(seed): 0.375 RDfolder: 0.122 Sensitivity RNAalifold(seed): 0.169 RDfolder: 0.025 Positive Predictive Value RNAalifold(seed): 0.835 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Murlet(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.375 Murlet(seed): 0.079 Sensitivity RNAalifold(seed): 0.169 Murlet(seed): 0.008 Positive Predictive Value RNAalifold(seed): 0.835 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs CMfinder(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.375 CMfinder(seed): 0.080 Sensitivity RNAalifold(seed): 0.169 CMfinder(seed): 0.008 Positive Predictive Value RNAalifold(seed): 0.835 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs TurboFold(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.375 TurboFold(seed): 0.076 Sensitivity RNAalifold(seed): 0.169 TurboFold(seed): 0.007 Positive Predictive Value RNAalifold(seed): 0.835 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs PPfold(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.375 PPfold(seed): 0.069 Sensitivity RNAalifold(seed): 0.169 PPfold(seed): 0.006 Positive Predictive Value RNAalifold(seed): 0.835 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Carnac(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.375 Carnac(seed): 0.066 Sensitivity RNAalifold(seed): 0.169 Carnac(seed): 0.005 Positive Predictive Value RNAalifold(seed): 0.835 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RNASampler(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.375 RNASampler(seed): 0.063 Sensitivity RNAalifold(seed): 0.169 RNASampler(seed): 0.005 Positive Predictive Value RNAalifold(seed): 0.835 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs NanoFolder Matthews Correlation Coefficient RNAalifold(seed): 0.375 NanoFolder: 0.052 Sensitivity RNAalifold(seed): 0.169 NanoFolder: 0.016 Positive Predictive Value RNAalifold(seed): 0.835 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Mastr(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.375 Mastr(seed): 0.051 Sensitivity RNAalifold(seed): 0.169 Mastr(seed): 0.003 Positive Predictive Value RNAalifold(seed): 0.835 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Multilign(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.375 Multilign(seed): 0.043 Sensitivity RNAalifold(seed): 0.169 Multilign(seed): 0.003 Positive Predictive Value RNAalifold(seed): 0.835 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
Afold	1987 ContextFold vs Afold Matthews Correlation Coefficient ContextFold: 0.680 Afold: 0.358 Sensitivity ContextFold: 0.644 Afold: 0.295 Positive Predictive Value ContextFold: 0.718 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs Afold Matthews Correlation Coefficient IPknot: 0.548 Afold: 0.358 Sensitivity IPknot: 0.475 Afold: 0.295 Positive Predictive Value IPknot: 0.632 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs Afold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Afold: 0.358 Sensitivity PETfold_pre2.0(seed): 0.343 Afold: 0.295 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs Afold Matthews Correlation Coefficient Contrafold: 0.508 Afold: 0.358 Sensitivity Contrafold: 0.481 Afold: 0.295 Positive Predictive Value Contrafold: 0.537 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs Afold Matthews Correlation Coefficient CentroidFold: 0.470 Afold: 0.358 Sensitivity CentroidFold: 0.369 Afold: 0.295 Positive Predictive Value CentroidFold: 0.600 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs Afold Matthews Correlation Coefficient Sfold: 0.469 Afold: 0.358 Sensitivity Sfold: 0.412 Afold: 0.295 Positive Predictive Value Sfold: 0.535 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs Afold Matthews Correlation Coefficient MaxExpect: 0.465 Afold: 0.358 Sensitivity MaxExpect: 0.443 Afold: 0.295 Positive Predictive Value MaxExpect: 0.488 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs Afold Matthews Correlation Coefficient ProbKnot: 0.460 Afold: 0.358 Sensitivity ProbKnot: 0.446 Afold: 0.295 Positive Predictive Value ProbKnot: 0.475 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs Afold Matthews Correlation Coefficient UNAFold: 0.445 Afold: 0.358 Sensitivity UNAFold: 0.445 Afold: 0.295 Positive Predictive Value UNAFold: 0.446 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs Afold Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Afold: 0.358 Sensitivity CentroidAlifold(seed): 0.213 Afold: 0.295 Positive Predictive Value CentroidAlifold(seed): 0.901 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs Afold Matthews Correlation Coefficient Fold: 0.437 Afold: 0.358 Sensitivity Fold: 0.432 Afold: 0.295 Positive Predictive Value Fold: 0.444 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs Afold Matthews Correlation Coefficient RNAfold: 0.429 Afold: 0.358 Sensitivity RNAfold: 0.422 Afold: 0.295 Positive Predictive Value RNAfold: 0.437 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs Afold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Afold: 0.358 Sensitivity CentroidHomfold‑LAST: 0.216 Afold: 0.295 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs Afold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Afold: 0.358 Sensitivity PETfold_pre2.0(20): 0.211 Afold: 0.295 Positive Predictive Value PETfold_pre2.0(20): 0.807 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs Afold Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Afold: 0.358 Sensitivity CentroidAlifold(20): 0.190 Afold: 0.295 Positive Predictive Value CentroidAlifold(20): 0.891 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs Afold Matthews Correlation Coefficient PknotsRG: 0.386 Afold: 0.358 Sensitivity PknotsRG: 0.320 Afold: 0.295 Positive Predictive Value PknotsRG: 0.465 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs Afold Matthews Correlation Coefficient MXScarna(seed): 0.385 Afold: 0.358 Sensitivity MXScarna(seed): 0.196 Afold: 0.295 Positive Predictive Value MXScarna(seed): 0.753 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs Afold Matthews Correlation Coefficient RNAalifold(20): 0.381 Afold: 0.358 Sensitivity RNAalifold(20): 0.185 Afold: 0.295 Positive Predictive Value RNAalifold(20): 0.787 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs Afold Matthews Correlation Coefficient RNAalifold(seed): 0.375 Afold: 0.358 Sensitivity RNAalifold(seed): 0.169 Afold: 0.295 Positive Predictive Value RNAalifold(seed): 0.835 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		= MXScarna(20) vs Afold Matthews Correlation Coefficient MXScarna(20): 0.359 Afold: 0.358 Sensitivity MXScarna(20): 0.181 Afold: 0.295 Positive Predictive Value MXScarna(20): 0.710 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.00227948062498	+ Afold vs CRWrnafold Matthews Correlation Coefficient Afold: 0.358 CRWrnafold: 0.346 Sensitivity Afold: 0.295 CRWrnafold: 0.275 Positive Predictive Value Afold: 0.434 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs RNAsubopt Matthews Correlation Coefficient Afold: 0.358 RNAsubopt: 0.336 Sensitivity Afold: 0.295 RNAsubopt: 0.217 Positive Predictive Value Afold: 0.434 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs McQFold Matthews Correlation Coefficient Afold: 0.358 McQFold: 0.314 Sensitivity Afold: 0.295 McQFold: 0.205 Positive Predictive Value Afold: 0.434 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs TurboFold(20) Matthews Correlation Coefficient Afold: 0.358 TurboFold(20): 0.301 Sensitivity Afold: 0.295 TurboFold(20): 0.108 Positive Predictive Value Afold: 0.434 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs PPfold(20) Matthews Correlation Coefficient Afold: 0.358 PPfold(20): 0.298 Sensitivity Afold: 0.295 PPfold(20): 0.101 Positive Predictive Value Afold: 0.434 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs RNAshapes Matthews Correlation Coefficient Afold: 0.358 RNAshapes: 0.295 Sensitivity Afold: 0.295 RNAshapes: 0.180 Positive Predictive Value Afold: 0.434 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Carnac(20) Matthews Correlation Coefficient Afold: 0.358 Carnac(20): 0.288 Sensitivity Afold: 0.295 Carnac(20): 0.093 Positive Predictive Value Afold: 0.434 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs RNASLOpt Matthews Correlation Coefficient Afold: 0.358 RNASLOpt: 0.281 Sensitivity Afold: 0.295 RNASLOpt: 0.158 Positive Predictive Value Afold: 0.434 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs RSpredict(20) Matthews Correlation Coefficient Afold: 0.358 RSpredict(20): 0.270 Sensitivity Afold: 0.295 RSpredict(20): 0.124 Positive Predictive Value Afold: 0.434 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Multilign(20) Matthews Correlation Coefficient Afold: 0.358 Multilign(20): 0.251 Sensitivity Afold: 0.295 Multilign(20): 0.083 Positive Predictive Value Afold: 0.434 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs RNAwolf Matthews Correlation Coefficient Afold: 0.358 RNAwolf: 0.251 Sensitivity Afold: 0.295 RNAwolf: 0.191 Positive Predictive Value Afold: 0.434 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Murlet(20) Matthews Correlation Coefficient Afold: 0.358 Murlet(20): 0.230 Sensitivity Afold: 0.295 Murlet(20): 0.067 Positive Predictive Value Afold: 0.434 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Vsfold4 Matthews Correlation Coefficient Afold: 0.358 Vsfold4: 0.217 Sensitivity Afold: 0.295 Vsfold4: 0.125 Positive Predictive Value Afold: 0.434 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Vsfold5 Matthews Correlation Coefficient Afold: 0.358 Vsfold5: 0.211 Sensitivity Afold: 0.295 Vsfold5: 0.125 Positive Predictive Value Afold: 0.434 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs RSpredict(seed) Matthews Correlation Coefficient Afold: 0.358 RSpredict(seed): 0.212 Sensitivity Afold: 0.295 RSpredict(seed): 0.075 Positive Predictive Value Afold: 0.434 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs CMfinder(20) Matthews Correlation Coefficient Afold: 0.358 CMfinder(20): 0.210 Sensitivity Afold: 0.295 CMfinder(20): 0.055 Positive Predictive Value Afold: 0.434 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs HotKnots Matthews Correlation Coefficient Afold: 0.358 HotKnots: 0.179 Sensitivity Afold: 0.295 HotKnots: 0.051 Positive Predictive Value Afold: 0.434 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs RNASampler(20) Matthews Correlation Coefficient Afold: 0.358 RNASampler(20): 0.176 Sensitivity Afold: 0.295 RNASampler(20): 0.035 Positive Predictive Value Afold: 0.434 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Cylofold Matthews Correlation Coefficient Afold: 0.358 Cylofold: 0.155 Sensitivity Afold: 0.295 Cylofold: 0.040 Positive Predictive Value Afold: 0.434 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Pknots Matthews Correlation Coefficient Afold: 0.358 Pknots: 0.143 Sensitivity Afold: 0.295 Pknots: 0.033 Positive Predictive Value Afold: 0.434 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Mastr(20) Matthews Correlation Coefficient Afold: 0.358 Mastr(20): 0.134 Sensitivity Afold: 0.295 Mastr(20): 0.023 Positive Predictive Value Afold: 0.434 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Alterna Matthews Correlation Coefficient Afold: 0.358 Alterna: 0.129 Sensitivity Afold: 0.295 Alterna: 0.030 Positive Predictive Value Afold: 0.434 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs MCFold Matthews Correlation Coefficient Afold: 0.358 MCFold: 0.125 Sensitivity Afold: 0.295 MCFold: 0.036 Positive Predictive Value Afold: 0.434 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs RDfolder Matthews Correlation Coefficient Afold: 0.358 RDfolder: 0.122 Sensitivity Afold: 0.295 RDfolder: 0.025 Positive Predictive Value Afold: 0.434 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Murlet(seed) Matthews Correlation Coefficient Afold: 0.358 Murlet(seed): 0.079 Sensitivity Afold: 0.295 Murlet(seed): 0.008 Positive Predictive Value Afold: 0.434 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs CMfinder(seed) Matthews Correlation Coefficient Afold: 0.358 CMfinder(seed): 0.080 Sensitivity Afold: 0.295 CMfinder(seed): 0.008 Positive Predictive Value Afold: 0.434 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs TurboFold(seed) Matthews Correlation Coefficient Afold: 0.358 TurboFold(seed): 0.076 Sensitivity Afold: 0.295 TurboFold(seed): 0.007 Positive Predictive Value Afold: 0.434 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs PPfold(seed) Matthews Correlation Coefficient Afold: 0.358 PPfold(seed): 0.069 Sensitivity Afold: 0.295 PPfold(seed): 0.006 Positive Predictive Value Afold: 0.434 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Carnac(seed) Matthews Correlation Coefficient Afold: 0.358 Carnac(seed): 0.066 Sensitivity Afold: 0.295 Carnac(seed): 0.005 Positive Predictive Value Afold: 0.434 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs RNASampler(seed) Matthews Correlation Coefficient Afold: 0.358 RNASampler(seed): 0.063 Sensitivity Afold: 0.295 RNASampler(seed): 0.005 Positive Predictive Value Afold: 0.434 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs NanoFolder Matthews Correlation Coefficient Afold: 0.358 NanoFolder: 0.052 Sensitivity Afold: 0.295 NanoFolder: 0.016 Positive Predictive Value Afold: 0.434 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Mastr(seed) Matthews Correlation Coefficient Afold: 0.358 Mastr(seed): 0.051 Sensitivity Afold: 0.295 Mastr(seed): 0.003 Positive Predictive Value Afold: 0.434 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Multilign(seed) Matthews Correlation Coefficient Afold: 0.358 Multilign(seed): 0.043 Sensitivity Afold: 0.295 Multilign(seed): 0.003 Positive Predictive Value Afold: 0.434 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
MXScarna(20)	1987 ContextFold vs MXScarna(20) Matthews Correlation Coefficient ContextFold: 0.680 MXScarna(20): 0.359 Sensitivity ContextFold: 0.644 MXScarna(20): 0.181 Positive Predictive Value ContextFold: 0.718 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs MXScarna(20) Matthews Correlation Coefficient IPknot: 0.548 MXScarna(20): 0.359 Sensitivity IPknot: 0.475 MXScarna(20): 0.181 Positive Predictive Value IPknot: 0.632 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs MXScarna(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 MXScarna(20): 0.359 Sensitivity PETfold_pre2.0(seed): 0.343 MXScarna(20): 0.181 Positive Predictive Value PETfold_pre2.0(seed): 0.814 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs MXScarna(20) Matthews Correlation Coefficient Contrafold: 0.508 MXScarna(20): 0.359 Sensitivity Contrafold: 0.481 MXScarna(20): 0.181 Positive Predictive Value Contrafold: 0.537 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs MXScarna(20) Matthews Correlation Coefficient CentroidFold: 0.470 MXScarna(20): 0.359 Sensitivity CentroidFold: 0.369 MXScarna(20): 0.181 Positive Predictive Value CentroidFold: 0.600 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs MXScarna(20) Matthews Correlation Coefficient Sfold: 0.469 MXScarna(20): 0.359 Sensitivity Sfold: 0.412 MXScarna(20): 0.181 Positive Predictive Value Sfold: 0.535 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs MXScarna(20) Matthews Correlation Coefficient MaxExpect: 0.465 MXScarna(20): 0.359 Sensitivity MaxExpect: 0.443 MXScarna(20): 0.181 Positive Predictive Value MaxExpect: 0.488 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs MXScarna(20) Matthews Correlation Coefficient ProbKnot: 0.460 MXScarna(20): 0.359 Sensitivity ProbKnot: 0.446 MXScarna(20): 0.181 Positive Predictive Value ProbKnot: 0.475 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs MXScarna(20) Matthews Correlation Coefficient UNAFold: 0.445 MXScarna(20): 0.359 Sensitivity UNAFold: 0.445 MXScarna(20): 0.181 Positive Predictive Value UNAFold: 0.446 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs MXScarna(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 MXScarna(20): 0.359 Sensitivity CentroidAlifold(seed): 0.213 MXScarna(20): 0.181 Positive Predictive Value CentroidAlifold(seed): 0.901 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs MXScarna(20) Matthews Correlation Coefficient Fold: 0.437 MXScarna(20): 0.359 Sensitivity Fold: 0.432 MXScarna(20): 0.181 Positive Predictive Value Fold: 0.444 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs MXScarna(20) Matthews Correlation Coefficient RNAfold: 0.429 MXScarna(20): 0.359 Sensitivity RNAfold: 0.422 MXScarna(20): 0.181 Positive Predictive Value RNAfold: 0.437 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs MXScarna(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 MXScarna(20): 0.359 Sensitivity CentroidHomfold‑LAST: 0.216 MXScarna(20): 0.181 Positive Predictive Value CentroidHomfold‑LAST: 0.850 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs MXScarna(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 MXScarna(20): 0.359 Sensitivity PETfold_pre2.0(20): 0.211 MXScarna(20): 0.181 Positive Predictive Value PETfold_pre2.0(20): 0.807 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs MXScarna(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 MXScarna(20): 0.359 Sensitivity CentroidAlifold(20): 0.190 MXScarna(20): 0.181 Positive Predictive Value CentroidAlifold(20): 0.891 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs MXScarna(20) Matthews Correlation Coefficient PknotsRG: 0.386 MXScarna(20): 0.359 Sensitivity PknotsRG: 0.320 MXScarna(20): 0.181 Positive Predictive Value PknotsRG: 0.465 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs MXScarna(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 MXScarna(20): 0.359 Sensitivity MXScarna(seed): 0.196 MXScarna(20): 0.181 Positive Predictive Value MXScarna(seed): 0.753 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs MXScarna(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 MXScarna(20): 0.359 Sensitivity RNAalifold(20): 0.185 MXScarna(20): 0.181 Positive Predictive Value RNAalifold(20): 0.787 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs MXScarna(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 MXScarna(20): 0.359 Sensitivity RNAalifold(seed): 0.169 MXScarna(20): 0.181 Positive Predictive Value RNAalifold(seed): 0.835 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs Afold Matthews Correlation Coefficient MXScarna(20): 0.359 Afold: 0.358 Sensitivity MXScarna(20): 0.181 Afold: 0.295 Positive Predictive Value MXScarna(20): 0.710 Afold: 0.434 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.00227948062498		+ MXScarna(20) vs CRWrnafold Matthews Correlation Coefficient MXScarna(20): 0.359 CRWrnafold: 0.346 Sensitivity MXScarna(20): 0.181 CRWrnafold: 0.275 Positive Predictive Value MXScarna(20): 0.710 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs RNAsubopt Matthews Correlation Coefficient MXScarna(20): 0.359 RNAsubopt: 0.336 Sensitivity MXScarna(20): 0.181 RNAsubopt: 0.217 Positive Predictive Value MXScarna(20): 0.710 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs McQFold Matthews Correlation Coefficient MXScarna(20): 0.359 McQFold: 0.314 Sensitivity MXScarna(20): 0.181 McQFold: 0.205 Positive Predictive Value MXScarna(20): 0.710 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs TurboFold(20) Matthews Correlation Coefficient MXScarna(20): 0.359 TurboFold(20): 0.301 Sensitivity MXScarna(20): 0.181 TurboFold(20): 0.108 Positive Predictive Value MXScarna(20): 0.710 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs PPfold(20) Matthews Correlation Coefficient MXScarna(20): 0.359 PPfold(20): 0.298 Sensitivity MXScarna(20): 0.181 PPfold(20): 0.101 Positive Predictive Value MXScarna(20): 0.710 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs RNAshapes Matthews Correlation Coefficient MXScarna(20): 0.359 RNAshapes: 0.295 Sensitivity MXScarna(20): 0.181 RNAshapes: 0.180 Positive Predictive Value MXScarna(20): 0.710 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Carnac(20) Matthews Correlation Coefficient MXScarna(20): 0.359 Carnac(20): 0.288 Sensitivity MXScarna(20): 0.181 Carnac(20): 0.093 Positive Predictive Value MXScarna(20): 0.710 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs RNASLOpt Matthews Correlation Coefficient MXScarna(20): 0.359 RNASLOpt: 0.281 Sensitivity MXScarna(20): 0.181 RNASLOpt: 0.158 Positive Predictive Value MXScarna(20): 0.710 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs RSpredict(20) Matthews Correlation Coefficient MXScarna(20): 0.359 RSpredict(20): 0.270 Sensitivity MXScarna(20): 0.181 RSpredict(20): 0.124 Positive Predictive Value MXScarna(20): 0.710 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Multilign(20) Matthews Correlation Coefficient MXScarna(20): 0.359 Multilign(20): 0.251 Sensitivity MXScarna(20): 0.181 Multilign(20): 0.083 Positive Predictive Value MXScarna(20): 0.710 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs RNAwolf Matthews Correlation Coefficient MXScarna(20): 0.359 RNAwolf: 0.251 Sensitivity MXScarna(20): 0.181 RNAwolf: 0.191 Positive Predictive Value MXScarna(20): 0.710 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Murlet(20) Matthews Correlation Coefficient MXScarna(20): 0.359 Murlet(20): 0.230 Sensitivity MXScarna(20): 0.181 Murlet(20): 0.067 Positive Predictive Value MXScarna(20): 0.710 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Vsfold4 Matthews Correlation Coefficient MXScarna(20): 0.359 Vsfold4: 0.217 Sensitivity MXScarna(20): 0.181 Vsfold4: 0.125 Positive Predictive Value MXScarna(20): 0.710 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Vsfold5 Matthews Correlation Coefficient MXScarna(20): 0.359 Vsfold5: 0.211 Sensitivity MXScarna(20): 0.181 Vsfold5: 0.125 Positive Predictive Value MXScarna(20): 0.710 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs RSpredict(seed) Matthews Correlation Coefficient MXScarna(20): 0.359 RSpredict(seed): 0.212 Sensitivity MXScarna(20): 0.181 RSpredict(seed): 0.075 Positive Predictive Value MXScarna(20): 0.710 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs CMfinder(20) Matthews Correlation Coefficient MXScarna(20): 0.359 CMfinder(20): 0.210 Sensitivity MXScarna(20): 0.181 CMfinder(20): 0.055 Positive Predictive Value MXScarna(20): 0.710 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs HotKnots Matthews Correlation Coefficient MXScarna(20): 0.359 HotKnots: 0.179 Sensitivity MXScarna(20): 0.181 HotKnots: 0.051 Positive Predictive Value MXScarna(20): 0.710 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs RNASampler(20) Matthews Correlation Coefficient MXScarna(20): 0.359 RNASampler(20): 0.176 Sensitivity MXScarna(20): 0.181 RNASampler(20): 0.035 Positive Predictive Value MXScarna(20): 0.710 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Cylofold Matthews Correlation Coefficient MXScarna(20): 0.359 Cylofold: 0.155 Sensitivity MXScarna(20): 0.181 Cylofold: 0.040 Positive Predictive Value MXScarna(20): 0.710 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Pknots Matthews Correlation Coefficient MXScarna(20): 0.359 Pknots: 0.143 Sensitivity MXScarna(20): 0.181 Pknots: 0.033 Positive Predictive Value MXScarna(20): 0.710 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Mastr(20) Matthews Correlation Coefficient MXScarna(20): 0.359 Mastr(20): 0.134 Sensitivity MXScarna(20): 0.181 Mastr(20): 0.023 Positive Predictive Value MXScarna(20): 0.710 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Alterna Matthews Correlation Coefficient MXScarna(20): 0.359 Alterna: 0.129 Sensitivity MXScarna(20): 0.181 Alterna: 0.030 Positive Predictive Value MXScarna(20): 0.710 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs MCFold Matthews Correlation Coefficient MXScarna(20): 0.359 MCFold: 0.125 Sensitivity MXScarna(20): 0.181 MCFold: 0.036 Positive Predictive Value MXScarna(20): 0.710 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs RDfolder Matthews Correlation Coefficient MXScarna(20): 0.359 RDfolder: 0.122 Sensitivity MXScarna(20): 0.181 RDfolder: 0.025 Positive Predictive Value MXScarna(20): 0.710 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Murlet(seed) Matthews Correlation Coefficient MXScarna(20): 0.359 Murlet(seed): 0.079 Sensitivity MXScarna(20): 0.181 Murlet(seed): 0.008 Positive Predictive Value MXScarna(20): 0.710 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs CMfinder(seed) Matthews Correlation Coefficient MXScarna(20): 0.359 CMfinder(seed): 0.080 Sensitivity MXScarna(20): 0.181 CMfinder(seed): 0.008 Positive Predictive Value MXScarna(20): 0.710 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs TurboFold(seed) Matthews Correlation Coefficient MXScarna(20): 0.359 TurboFold(seed): 0.076 Sensitivity MXScarna(20): 0.181 TurboFold(seed): 0.007 Positive Predictive Value MXScarna(20): 0.710 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs PPfold(seed) Matthews Correlation Coefficient MXScarna(20): 0.359 PPfold(seed): 0.069 Sensitivity MXScarna(20): 0.181 PPfold(seed): 0.006 Positive Predictive Value MXScarna(20): 0.710 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Carnac(seed) Matthews Correlation Coefficient MXScarna(20): 0.359 Carnac(seed): 0.066 Sensitivity MXScarna(20): 0.181 Carnac(seed): 0.005 Positive Predictive Value MXScarna(20): 0.710 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs RNASampler(seed) Matthews Correlation Coefficient MXScarna(20): 0.359 RNASampler(seed): 0.063 Sensitivity MXScarna(20): 0.181 RNASampler(seed): 0.005 Positive Predictive Value MXScarna(20): 0.710 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs NanoFolder Matthews Correlation Coefficient MXScarna(20): 0.359 NanoFolder: 0.052 Sensitivity MXScarna(20): 0.181 NanoFolder: 0.016 Positive Predictive Value MXScarna(20): 0.710 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Mastr(seed) Matthews Correlation Coefficient MXScarna(20): 0.359 Mastr(seed): 0.051 Sensitivity MXScarna(20): 0.181 Mastr(seed): 0.003 Positive Predictive Value MXScarna(20): 0.710 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Multilign(seed) Matthews Correlation Coefficient MXScarna(20): 0.359 Multilign(seed): 0.043 Sensitivity MXScarna(20): 0.181 Multilign(seed): 0.003 Positive Predictive Value MXScarna(20): 0.710 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
CRWrnafold	1987 ContextFold vs CRWrnafold Matthews Correlation Coefficient ContextFold: 0.680 CRWrnafold: 0.346 Sensitivity ContextFold: 0.644 CRWrnafold: 0.275 Positive Predictive Value ContextFold: 0.718 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs CRWrnafold Matthews Correlation Coefficient IPknot: 0.548 CRWrnafold: 0.346 Sensitivity IPknot: 0.475 CRWrnafold: 0.275 Positive Predictive Value IPknot: 0.632 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs CRWrnafold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 CRWrnafold: 0.346 Sensitivity PETfold_pre2.0(seed): 0.343 CRWrnafold: 0.275 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs CRWrnafold Matthews Correlation Coefficient Contrafold: 0.508 CRWrnafold: 0.346 Sensitivity Contrafold: 0.481 CRWrnafold: 0.275 Positive Predictive Value Contrafold: 0.537 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs CRWrnafold Matthews Correlation Coefficient CentroidFold: 0.470 CRWrnafold: 0.346 Sensitivity CentroidFold: 0.369 CRWrnafold: 0.275 Positive Predictive Value CentroidFold: 0.600 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs CRWrnafold Matthews Correlation Coefficient Sfold: 0.469 CRWrnafold: 0.346 Sensitivity Sfold: 0.412 CRWrnafold: 0.275 Positive Predictive Value Sfold: 0.535 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs CRWrnafold Matthews Correlation Coefficient MaxExpect: 0.465 CRWrnafold: 0.346 Sensitivity MaxExpect: 0.443 CRWrnafold: 0.275 Positive Predictive Value MaxExpect: 0.488 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs CRWrnafold Matthews Correlation Coefficient ProbKnot: 0.460 CRWrnafold: 0.346 Sensitivity ProbKnot: 0.446 CRWrnafold: 0.275 Positive Predictive Value ProbKnot: 0.475 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs CRWrnafold Matthews Correlation Coefficient UNAFold: 0.445 CRWrnafold: 0.346 Sensitivity UNAFold: 0.445 CRWrnafold: 0.275 Positive Predictive Value UNAFold: 0.446 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs CRWrnafold Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 CRWrnafold: 0.346 Sensitivity CentroidAlifold(seed): 0.213 CRWrnafold: 0.275 Positive Predictive Value CentroidAlifold(seed): 0.901 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs CRWrnafold Matthews Correlation Coefficient Fold: 0.437 CRWrnafold: 0.346 Sensitivity Fold: 0.432 CRWrnafold: 0.275 Positive Predictive Value Fold: 0.444 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs CRWrnafold Matthews Correlation Coefficient RNAfold: 0.429 CRWrnafold: 0.346 Sensitivity RNAfold: 0.422 CRWrnafold: 0.275 Positive Predictive Value RNAfold: 0.437 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs CRWrnafold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 CRWrnafold: 0.346 Sensitivity CentroidHomfold‑LAST: 0.216 CRWrnafold: 0.275 Positive Predictive Value CentroidHomfold‑LAST: 0.850 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs CRWrnafold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 CRWrnafold: 0.346 Sensitivity PETfold_pre2.0(20): 0.211 CRWrnafold: 0.275 Positive Predictive Value PETfold_pre2.0(20): 0.807 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs CRWrnafold Matthews Correlation Coefficient CentroidAlifold(20): 0.411 CRWrnafold: 0.346 Sensitivity CentroidAlifold(20): 0.190 CRWrnafold: 0.275 Positive Predictive Value CentroidAlifold(20): 0.891 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs CRWrnafold Matthews Correlation Coefficient PknotsRG: 0.386 CRWrnafold: 0.346 Sensitivity PknotsRG: 0.320 CRWrnafold: 0.275 Positive Predictive Value PknotsRG: 0.465 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs CRWrnafold Matthews Correlation Coefficient MXScarna(seed): 0.385 CRWrnafold: 0.346 Sensitivity MXScarna(seed): 0.196 CRWrnafold: 0.275 Positive Predictive Value MXScarna(seed): 0.753 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs CRWrnafold Matthews Correlation Coefficient RNAalifold(20): 0.381 CRWrnafold: 0.346 Sensitivity RNAalifold(20): 0.185 CRWrnafold: 0.275 Positive Predictive Value RNAalifold(20): 0.787 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs CRWrnafold Matthews Correlation Coefficient RNAalifold(seed): 0.375 CRWrnafold: 0.346 Sensitivity RNAalifold(seed): 0.169 CRWrnafold: 0.275 Positive Predictive Value RNAalifold(seed): 0.835 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs CRWrnafold Matthews Correlation Coefficient Afold: 0.358 CRWrnafold: 0.346 Sensitivity Afold: 0.295 CRWrnafold: 0.275 Positive Predictive Value Afold: 0.434 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs CRWrnafold Matthews Correlation Coefficient MXScarna(20): 0.359 CRWrnafold: 0.346 Sensitivity MXScarna(20): 0.181 CRWrnafold: 0.275 Positive Predictive Value MXScarna(20): 0.710 CRWrnafold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ CRWrnafold vs RNAsubopt Matthews Correlation Coefficient CRWrnafold: 0.346 RNAsubopt: 0.336 Sensitivity CRWrnafold: 0.275 RNAsubopt: 0.217 Positive Predictive Value CRWrnafold: 0.435 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs McQFold Matthews Correlation Coefficient CRWrnafold: 0.346 McQFold: 0.314 Sensitivity CRWrnafold: 0.275 McQFold: 0.205 Positive Predictive Value CRWrnafold: 0.435 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs TurboFold(20) Matthews Correlation Coefficient CRWrnafold: 0.346 TurboFold(20): 0.301 Sensitivity CRWrnafold: 0.275 TurboFold(20): 0.108 Positive Predictive Value CRWrnafold: 0.435 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs PPfold(20) Matthews Correlation Coefficient CRWrnafold: 0.346 PPfold(20): 0.298 Sensitivity CRWrnafold: 0.275 PPfold(20): 0.101 Positive Predictive Value CRWrnafold: 0.435 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs RNAshapes Matthews Correlation Coefficient CRWrnafold: 0.346 RNAshapes: 0.295 Sensitivity CRWrnafold: 0.275 RNAshapes: 0.180 Positive Predictive Value CRWrnafold: 0.435 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Carnac(20) Matthews Correlation Coefficient CRWrnafold: 0.346 Carnac(20): 0.288 Sensitivity CRWrnafold: 0.275 Carnac(20): 0.093 Positive Predictive Value CRWrnafold: 0.435 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs RNASLOpt Matthews Correlation Coefficient CRWrnafold: 0.346 RNASLOpt: 0.281 Sensitivity CRWrnafold: 0.275 RNASLOpt: 0.158 Positive Predictive Value CRWrnafold: 0.435 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs RSpredict(20) Matthews Correlation Coefficient CRWrnafold: 0.346 RSpredict(20): 0.270 Sensitivity CRWrnafold: 0.275 RSpredict(20): 0.124 Positive Predictive Value CRWrnafold: 0.435 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Multilign(20) Matthews Correlation Coefficient CRWrnafold: 0.346 Multilign(20): 0.251 Sensitivity CRWrnafold: 0.275 Multilign(20): 0.083 Positive Predictive Value CRWrnafold: 0.435 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs RNAwolf Matthews Correlation Coefficient CRWrnafold: 0.346 RNAwolf: 0.251 Sensitivity CRWrnafold: 0.275 RNAwolf: 0.191 Positive Predictive Value CRWrnafold: 0.435 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Murlet(20) Matthews Correlation Coefficient CRWrnafold: 0.346 Murlet(20): 0.230 Sensitivity CRWrnafold: 0.275 Murlet(20): 0.067 Positive Predictive Value CRWrnafold: 0.435 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Vsfold4 Matthews Correlation Coefficient CRWrnafold: 0.346 Vsfold4: 0.217 Sensitivity CRWrnafold: 0.275 Vsfold4: 0.125 Positive Predictive Value CRWrnafold: 0.435 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Vsfold5 Matthews Correlation Coefficient CRWrnafold: 0.346 Vsfold5: 0.211 Sensitivity CRWrnafold: 0.275 Vsfold5: 0.125 Positive Predictive Value CRWrnafold: 0.435 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs RSpredict(seed) Matthews Correlation Coefficient CRWrnafold: 0.346 RSpredict(seed): 0.212 Sensitivity CRWrnafold: 0.275 RSpredict(seed): 0.075 Positive Predictive Value CRWrnafold: 0.435 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs CMfinder(20) Matthews Correlation Coefficient CRWrnafold: 0.346 CMfinder(20): 0.210 Sensitivity CRWrnafold: 0.275 CMfinder(20): 0.055 Positive Predictive Value CRWrnafold: 0.435 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs HotKnots Matthews Correlation Coefficient CRWrnafold: 0.346 HotKnots: 0.179 Sensitivity CRWrnafold: 0.275 HotKnots: 0.051 Positive Predictive Value CRWrnafold: 0.435 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs RNASampler(20) Matthews Correlation Coefficient CRWrnafold: 0.346 RNASampler(20): 0.176 Sensitivity CRWrnafold: 0.275 RNASampler(20): 0.035 Positive Predictive Value CRWrnafold: 0.435 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Cylofold Matthews Correlation Coefficient CRWrnafold: 0.346 Cylofold: 0.155 Sensitivity CRWrnafold: 0.275 Cylofold: 0.040 Positive Predictive Value CRWrnafold: 0.435 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Pknots Matthews Correlation Coefficient CRWrnafold: 0.346 Pknots: 0.143 Sensitivity CRWrnafold: 0.275 Pknots: 0.033 Positive Predictive Value CRWrnafold: 0.435 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Mastr(20) Matthews Correlation Coefficient CRWrnafold: 0.346 Mastr(20): 0.134 Sensitivity CRWrnafold: 0.275 Mastr(20): 0.023 Positive Predictive Value CRWrnafold: 0.435 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Alterna Matthews Correlation Coefficient CRWrnafold: 0.346 Alterna: 0.129 Sensitivity CRWrnafold: 0.275 Alterna: 0.030 Positive Predictive Value CRWrnafold: 0.435 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs MCFold Matthews Correlation Coefficient CRWrnafold: 0.346 MCFold: 0.125 Sensitivity CRWrnafold: 0.275 MCFold: 0.036 Positive Predictive Value CRWrnafold: 0.435 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs RDfolder Matthews Correlation Coefficient CRWrnafold: 0.346 RDfolder: 0.122 Sensitivity CRWrnafold: 0.275 RDfolder: 0.025 Positive Predictive Value CRWrnafold: 0.435 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Murlet(seed) Matthews Correlation Coefficient CRWrnafold: 0.346 Murlet(seed): 0.079 Sensitivity CRWrnafold: 0.275 Murlet(seed): 0.008 Positive Predictive Value CRWrnafold: 0.435 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs CMfinder(seed) Matthews Correlation Coefficient CRWrnafold: 0.346 CMfinder(seed): 0.080 Sensitivity CRWrnafold: 0.275 CMfinder(seed): 0.008 Positive Predictive Value CRWrnafold: 0.435 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs TurboFold(seed) Matthews Correlation Coefficient CRWrnafold: 0.346 TurboFold(seed): 0.076 Sensitivity CRWrnafold: 0.275 TurboFold(seed): 0.007 Positive Predictive Value CRWrnafold: 0.435 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs PPfold(seed) Matthews Correlation Coefficient CRWrnafold: 0.346 PPfold(seed): 0.069 Sensitivity CRWrnafold: 0.275 PPfold(seed): 0.006 Positive Predictive Value CRWrnafold: 0.435 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Carnac(seed) Matthews Correlation Coefficient CRWrnafold: 0.346 Carnac(seed): 0.066 Sensitivity CRWrnafold: 0.275 Carnac(seed): 0.005 Positive Predictive Value CRWrnafold: 0.435 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs RNASampler(seed) Matthews Correlation Coefficient CRWrnafold: 0.346 RNASampler(seed): 0.063 Sensitivity CRWrnafold: 0.275 RNASampler(seed): 0.005 Positive Predictive Value CRWrnafold: 0.435 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs NanoFolder Matthews Correlation Coefficient CRWrnafold: 0.346 NanoFolder: 0.052 Sensitivity CRWrnafold: 0.275 NanoFolder: 0.016 Positive Predictive Value CRWrnafold: 0.435 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Mastr(seed) Matthews Correlation Coefficient CRWrnafold: 0.346 Mastr(seed): 0.051 Sensitivity CRWrnafold: 0.275 Mastr(seed): 0.003 Positive Predictive Value CRWrnafold: 0.435 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Multilign(seed) Matthews Correlation Coefficient CRWrnafold: 0.346 Multilign(seed): 0.043 Sensitivity CRWrnafold: 0.275 Multilign(seed): 0.003 Positive Predictive Value CRWrnafold: 0.435 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
RNAsubopt	1987 ContextFold vs RNAsubopt Matthews Correlation Coefficient ContextFold: 0.680 RNAsubopt: 0.336 Sensitivity ContextFold: 0.644 RNAsubopt: 0.217 Positive Predictive Value ContextFold: 0.718 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs RNAsubopt Matthews Correlation Coefficient IPknot: 0.548 RNAsubopt: 0.336 Sensitivity IPknot: 0.475 RNAsubopt: 0.217 Positive Predictive Value IPknot: 0.632 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs RNAsubopt Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RNAsubopt: 0.336 Sensitivity PETfold_pre2.0(seed): 0.343 RNAsubopt: 0.217 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs RNAsubopt Matthews Correlation Coefficient Contrafold: 0.508 RNAsubopt: 0.336 Sensitivity Contrafold: 0.481 RNAsubopt: 0.217 Positive Predictive Value Contrafold: 0.537 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs RNAsubopt Matthews Correlation Coefficient CentroidFold: 0.470 RNAsubopt: 0.336 Sensitivity CentroidFold: 0.369 RNAsubopt: 0.217 Positive Predictive Value CentroidFold: 0.600 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs RNAsubopt Matthews Correlation Coefficient Sfold: 0.469 RNAsubopt: 0.336 Sensitivity Sfold: 0.412 RNAsubopt: 0.217 Positive Predictive Value Sfold: 0.535 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs RNAsubopt Matthews Correlation Coefficient MaxExpect: 0.465 RNAsubopt: 0.336 Sensitivity MaxExpect: 0.443 RNAsubopt: 0.217 Positive Predictive Value MaxExpect: 0.488 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs RNAsubopt Matthews Correlation Coefficient ProbKnot: 0.460 RNAsubopt: 0.336 Sensitivity ProbKnot: 0.446 RNAsubopt: 0.217 Positive Predictive Value ProbKnot: 0.475 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs RNAsubopt Matthews Correlation Coefficient UNAFold: 0.445 RNAsubopt: 0.336 Sensitivity UNAFold: 0.445 RNAsubopt: 0.217 Positive Predictive Value UNAFold: 0.446 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs RNAsubopt Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RNAsubopt: 0.336 Sensitivity CentroidAlifold(seed): 0.213 RNAsubopt: 0.217 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs RNAsubopt Matthews Correlation Coefficient Fold: 0.437 RNAsubopt: 0.336 Sensitivity Fold: 0.432 RNAsubopt: 0.217 Positive Predictive Value Fold: 0.444 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs RNAsubopt Matthews Correlation Coefficient RNAfold: 0.429 RNAsubopt: 0.336 Sensitivity RNAfold: 0.422 RNAsubopt: 0.217 Positive Predictive Value RNAfold: 0.437 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs RNAsubopt Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RNAsubopt: 0.336 Sensitivity CentroidHomfold‑LAST: 0.216 RNAsubopt: 0.217 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs RNAsubopt Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RNAsubopt: 0.336 Sensitivity PETfold_pre2.0(20): 0.211 RNAsubopt: 0.217 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs RNAsubopt Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RNAsubopt: 0.336 Sensitivity CentroidAlifold(20): 0.190 RNAsubopt: 0.217 Positive Predictive Value CentroidAlifold(20): 0.891 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs RNAsubopt Matthews Correlation Coefficient PknotsRG: 0.386 RNAsubopt: 0.336 Sensitivity PknotsRG: 0.320 RNAsubopt: 0.217 Positive Predictive Value PknotsRG: 0.465 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs RNAsubopt Matthews Correlation Coefficient MXScarna(seed): 0.385 RNAsubopt: 0.336 Sensitivity MXScarna(seed): 0.196 RNAsubopt: 0.217 Positive Predictive Value MXScarna(seed): 0.753 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs RNAsubopt Matthews Correlation Coefficient RNAalifold(20): 0.381 RNAsubopt: 0.336 Sensitivity RNAalifold(20): 0.185 RNAsubopt: 0.217 Positive Predictive Value RNAalifold(20): 0.787 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs RNAsubopt Matthews Correlation Coefficient RNAalifold(seed): 0.375 RNAsubopt: 0.336 Sensitivity RNAalifold(seed): 0.169 RNAsubopt: 0.217 Positive Predictive Value RNAalifold(seed): 0.835 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs RNAsubopt Matthews Correlation Coefficient Afold: 0.358 RNAsubopt: 0.336 Sensitivity Afold: 0.295 RNAsubopt: 0.217 Positive Predictive Value Afold: 0.434 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs RNAsubopt Matthews Correlation Coefficient MXScarna(20): 0.359 RNAsubopt: 0.336 Sensitivity MXScarna(20): 0.181 RNAsubopt: 0.217 Positive Predictive Value MXScarna(20): 0.710 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs RNAsubopt Matthews Correlation Coefficient CRWrnafold: 0.346 RNAsubopt: 0.336 Sensitivity CRWrnafold: 0.275 RNAsubopt: 0.217 Positive Predictive Value CRWrnafold: 0.435 RNAsubopt: 0.521 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ RNAsubopt vs McQFold Matthews Correlation Coefficient RNAsubopt: 0.336 McQFold: 0.314 Sensitivity RNAsubopt: 0.217 McQFold: 0.205 Positive Predictive Value RNAsubopt: 0.521 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs TurboFold(20) Matthews Correlation Coefficient RNAsubopt: 0.336 TurboFold(20): 0.301 Sensitivity RNAsubopt: 0.217 TurboFold(20): 0.108 Positive Predictive Value RNAsubopt: 0.521 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs PPfold(20) Matthews Correlation Coefficient RNAsubopt: 0.336 PPfold(20): 0.298 Sensitivity RNAsubopt: 0.217 PPfold(20): 0.101 Positive Predictive Value RNAsubopt: 0.521 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs RNAshapes Matthews Correlation Coefficient RNAsubopt: 0.336 RNAshapes: 0.295 Sensitivity RNAsubopt: 0.217 RNAshapes: 0.180 Positive Predictive Value RNAsubopt: 0.521 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Carnac(20) Matthews Correlation Coefficient RNAsubopt: 0.336 Carnac(20): 0.288 Sensitivity RNAsubopt: 0.217 Carnac(20): 0.093 Positive Predictive Value RNAsubopt: 0.521 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs RNASLOpt Matthews Correlation Coefficient RNAsubopt: 0.336 RNASLOpt: 0.281 Sensitivity RNAsubopt: 0.217 RNASLOpt: 0.158 Positive Predictive Value RNAsubopt: 0.521 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs RSpredict(20) Matthews Correlation Coefficient RNAsubopt: 0.336 RSpredict(20): 0.270 Sensitivity RNAsubopt: 0.217 RSpredict(20): 0.124 Positive Predictive Value RNAsubopt: 0.521 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Multilign(20) Matthews Correlation Coefficient RNAsubopt: 0.336 Multilign(20): 0.251 Sensitivity RNAsubopt: 0.217 Multilign(20): 0.083 Positive Predictive Value RNAsubopt: 0.521 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs RNAwolf Matthews Correlation Coefficient RNAsubopt: 0.336 RNAwolf: 0.251 Sensitivity RNAsubopt: 0.217 RNAwolf: 0.191 Positive Predictive Value RNAsubopt: 0.521 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Murlet(20) Matthews Correlation Coefficient RNAsubopt: 0.336 Murlet(20): 0.230 Sensitivity RNAsubopt: 0.217 Murlet(20): 0.067 Positive Predictive Value RNAsubopt: 0.521 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Vsfold4 Matthews Correlation Coefficient RNAsubopt: 0.336 Vsfold4: 0.217 Sensitivity RNAsubopt: 0.217 Vsfold4: 0.125 Positive Predictive Value RNAsubopt: 0.521 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Vsfold5 Matthews Correlation Coefficient RNAsubopt: 0.336 Vsfold5: 0.211 Sensitivity RNAsubopt: 0.217 Vsfold5: 0.125 Positive Predictive Value RNAsubopt: 0.521 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs RSpredict(seed) Matthews Correlation Coefficient RNAsubopt: 0.336 RSpredict(seed): 0.212 Sensitivity RNAsubopt: 0.217 RSpredict(seed): 0.075 Positive Predictive Value RNAsubopt: 0.521 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs CMfinder(20) Matthews Correlation Coefficient RNAsubopt: 0.336 CMfinder(20): 0.210 Sensitivity RNAsubopt: 0.217 CMfinder(20): 0.055 Positive Predictive Value RNAsubopt: 0.521 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs HotKnots Matthews Correlation Coefficient RNAsubopt: 0.336 HotKnots: 0.179 Sensitivity RNAsubopt: 0.217 HotKnots: 0.051 Positive Predictive Value RNAsubopt: 0.521 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs RNASampler(20) Matthews Correlation Coefficient RNAsubopt: 0.336 RNASampler(20): 0.176 Sensitivity RNAsubopt: 0.217 RNASampler(20): 0.035 Positive Predictive Value RNAsubopt: 0.521 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Cylofold Matthews Correlation Coefficient RNAsubopt: 0.336 Cylofold: 0.155 Sensitivity RNAsubopt: 0.217 Cylofold: 0.040 Positive Predictive Value RNAsubopt: 0.521 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Pknots Matthews Correlation Coefficient RNAsubopt: 0.336 Pknots: 0.143 Sensitivity RNAsubopt: 0.217 Pknots: 0.033 Positive Predictive Value RNAsubopt: 0.521 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Mastr(20) Matthews Correlation Coefficient RNAsubopt: 0.336 Mastr(20): 0.134 Sensitivity RNAsubopt: 0.217 Mastr(20): 0.023 Positive Predictive Value RNAsubopt: 0.521 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Alterna Matthews Correlation Coefficient RNAsubopt: 0.336 Alterna: 0.129 Sensitivity RNAsubopt: 0.217 Alterna: 0.030 Positive Predictive Value RNAsubopt: 0.521 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs MCFold Matthews Correlation Coefficient RNAsubopt: 0.336 MCFold: 0.125 Sensitivity RNAsubopt: 0.217 MCFold: 0.036 Positive Predictive Value RNAsubopt: 0.521 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs RDfolder Matthews Correlation Coefficient RNAsubopt: 0.336 RDfolder: 0.122 Sensitivity RNAsubopt: 0.217 RDfolder: 0.025 Positive Predictive Value RNAsubopt: 0.521 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Murlet(seed) Matthews Correlation Coefficient RNAsubopt: 0.336 Murlet(seed): 0.079 Sensitivity RNAsubopt: 0.217 Murlet(seed): 0.008 Positive Predictive Value RNAsubopt: 0.521 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs CMfinder(seed) Matthews Correlation Coefficient RNAsubopt: 0.336 CMfinder(seed): 0.080 Sensitivity RNAsubopt: 0.217 CMfinder(seed): 0.008 Positive Predictive Value RNAsubopt: 0.521 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs TurboFold(seed) Matthews Correlation Coefficient RNAsubopt: 0.336 TurboFold(seed): 0.076 Sensitivity RNAsubopt: 0.217 TurboFold(seed): 0.007 Positive Predictive Value RNAsubopt: 0.521 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs PPfold(seed) Matthews Correlation Coefficient RNAsubopt: 0.336 PPfold(seed): 0.069 Sensitivity RNAsubopt: 0.217 PPfold(seed): 0.006 Positive Predictive Value RNAsubopt: 0.521 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Carnac(seed) Matthews Correlation Coefficient RNAsubopt: 0.336 Carnac(seed): 0.066 Sensitivity RNAsubopt: 0.217 Carnac(seed): 0.005 Positive Predictive Value RNAsubopt: 0.521 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs RNASampler(seed) Matthews Correlation Coefficient RNAsubopt: 0.336 RNASampler(seed): 0.063 Sensitivity RNAsubopt: 0.217 RNASampler(seed): 0.005 Positive Predictive Value RNAsubopt: 0.521 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs NanoFolder Matthews Correlation Coefficient RNAsubopt: 0.336 NanoFolder: 0.052 Sensitivity RNAsubopt: 0.217 NanoFolder: 0.016 Positive Predictive Value RNAsubopt: 0.521 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Mastr(seed) Matthews Correlation Coefficient RNAsubopt: 0.336 Mastr(seed): 0.051 Sensitivity RNAsubopt: 0.217 Mastr(seed): 0.003 Positive Predictive Value RNAsubopt: 0.521 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Multilign(seed) Matthews Correlation Coefficient RNAsubopt: 0.336 Multilign(seed): 0.043 Sensitivity RNAsubopt: 0.217 Multilign(seed): 0.003 Positive Predictive Value RNAsubopt: 0.521 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
McQFold	1987 ContextFold vs McQFold Matthews Correlation Coefficient ContextFold: 0.680 McQFold: 0.314 Sensitivity ContextFold: 0.644 McQFold: 0.205 Positive Predictive Value ContextFold: 0.718 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs McQFold Matthews Correlation Coefficient IPknot: 0.548 McQFold: 0.314 Sensitivity IPknot: 0.475 McQFold: 0.205 Positive Predictive Value IPknot: 0.632 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs McQFold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 McQFold: 0.314 Sensitivity PETfold_pre2.0(seed): 0.343 McQFold: 0.205 Positive Predictive Value PETfold_pre2.0(seed): 0.814 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs McQFold Matthews Correlation Coefficient Contrafold: 0.508 McQFold: 0.314 Sensitivity Contrafold: 0.481 McQFold: 0.205 Positive Predictive Value Contrafold: 0.537 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs McQFold Matthews Correlation Coefficient CentroidFold: 0.470 McQFold: 0.314 Sensitivity CentroidFold: 0.369 McQFold: 0.205 Positive Predictive Value CentroidFold: 0.600 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs McQFold Matthews Correlation Coefficient Sfold: 0.469 McQFold: 0.314 Sensitivity Sfold: 0.412 McQFold: 0.205 Positive Predictive Value Sfold: 0.535 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs McQFold Matthews Correlation Coefficient MaxExpect: 0.465 McQFold: 0.314 Sensitivity MaxExpect: 0.443 McQFold: 0.205 Positive Predictive Value MaxExpect: 0.488 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs McQFold Matthews Correlation Coefficient ProbKnot: 0.460 McQFold: 0.314 Sensitivity ProbKnot: 0.446 McQFold: 0.205 Positive Predictive Value ProbKnot: 0.475 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs McQFold Matthews Correlation Coefficient UNAFold: 0.445 McQFold: 0.314 Sensitivity UNAFold: 0.445 McQFold: 0.205 Positive Predictive Value UNAFold: 0.446 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs McQFold Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 McQFold: 0.314 Sensitivity CentroidAlifold(seed): 0.213 McQFold: 0.205 Positive Predictive Value CentroidAlifold(seed): 0.901 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs McQFold Matthews Correlation Coefficient Fold: 0.437 McQFold: 0.314 Sensitivity Fold: 0.432 McQFold: 0.205 Positive Predictive Value Fold: 0.444 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs McQFold Matthews Correlation Coefficient RNAfold: 0.429 McQFold: 0.314 Sensitivity RNAfold: 0.422 McQFold: 0.205 Positive Predictive Value RNAfold: 0.437 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs McQFold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 McQFold: 0.314 Sensitivity CentroidHomfold‑LAST: 0.216 McQFold: 0.205 Positive Predictive Value CentroidHomfold‑LAST: 0.850 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs McQFold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 McQFold: 0.314 Sensitivity PETfold_pre2.0(20): 0.211 McQFold: 0.205 Positive Predictive Value PETfold_pre2.0(20): 0.807 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs McQFold Matthews Correlation Coefficient CentroidAlifold(20): 0.411 McQFold: 0.314 Sensitivity CentroidAlifold(20): 0.190 McQFold: 0.205 Positive Predictive Value CentroidAlifold(20): 0.891 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs McQFold Matthews Correlation Coefficient PknotsRG: 0.386 McQFold: 0.314 Sensitivity PknotsRG: 0.320 McQFold: 0.205 Positive Predictive Value PknotsRG: 0.465 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs McQFold Matthews Correlation Coefficient MXScarna(seed): 0.385 McQFold: 0.314 Sensitivity MXScarna(seed): 0.196 McQFold: 0.205 Positive Predictive Value MXScarna(seed): 0.753 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs McQFold Matthews Correlation Coefficient RNAalifold(20): 0.381 McQFold: 0.314 Sensitivity RNAalifold(20): 0.185 McQFold: 0.205 Positive Predictive Value RNAalifold(20): 0.787 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs McQFold Matthews Correlation Coefficient RNAalifold(seed): 0.375 McQFold: 0.314 Sensitivity RNAalifold(seed): 0.169 McQFold: 0.205 Positive Predictive Value RNAalifold(seed): 0.835 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs McQFold Matthews Correlation Coefficient Afold: 0.358 McQFold: 0.314 Sensitivity Afold: 0.295 McQFold: 0.205 Positive Predictive Value Afold: 0.434 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs McQFold Matthews Correlation Coefficient MXScarna(20): 0.359 McQFold: 0.314 Sensitivity MXScarna(20): 0.181 McQFold: 0.205 Positive Predictive Value MXScarna(20): 0.710 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs McQFold Matthews Correlation Coefficient CRWrnafold: 0.346 McQFold: 0.314 Sensitivity CRWrnafold: 0.275 McQFold: 0.205 Positive Predictive Value CRWrnafold: 0.435 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs McQFold Matthews Correlation Coefficient RNAsubopt: 0.336 McQFold: 0.314 Sensitivity RNAsubopt: 0.217 McQFold: 0.205 Positive Predictive Value RNAsubopt: 0.521 McQFold: 0.480 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ McQFold vs TurboFold(20) Matthews Correlation Coefficient McQFold: 0.314 TurboFold(20): 0.301 Sensitivity McQFold: 0.205 TurboFold(20): 0.108 Positive Predictive Value McQFold: 0.480 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs PPfold(20) Matthews Correlation Coefficient McQFold: 0.314 PPfold(20): 0.298 Sensitivity McQFold: 0.205 PPfold(20): 0.101 Positive Predictive Value McQFold: 0.480 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs RNAshapes Matthews Correlation Coefficient McQFold: 0.314 RNAshapes: 0.295 Sensitivity McQFold: 0.205 RNAshapes: 0.180 Positive Predictive Value McQFold: 0.480 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Carnac(20) Matthews Correlation Coefficient McQFold: 0.314 Carnac(20): 0.288 Sensitivity McQFold: 0.205 Carnac(20): 0.093 Positive Predictive Value McQFold: 0.480 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs RNASLOpt Matthews Correlation Coefficient McQFold: 0.314 RNASLOpt: 0.281 Sensitivity McQFold: 0.205 RNASLOpt: 0.158 Positive Predictive Value McQFold: 0.480 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs RSpredict(20) Matthews Correlation Coefficient McQFold: 0.314 RSpredict(20): 0.270 Sensitivity McQFold: 0.205 RSpredict(20): 0.124 Positive Predictive Value McQFold: 0.480 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Multilign(20) Matthews Correlation Coefficient McQFold: 0.314 Multilign(20): 0.251 Sensitivity McQFold: 0.205 Multilign(20): 0.083 Positive Predictive Value McQFold: 0.480 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs RNAwolf Matthews Correlation Coefficient McQFold: 0.314 RNAwolf: 0.251 Sensitivity McQFold: 0.205 RNAwolf: 0.191 Positive Predictive Value McQFold: 0.480 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Murlet(20) Matthews Correlation Coefficient McQFold: 0.314 Murlet(20): 0.230 Sensitivity McQFold: 0.205 Murlet(20): 0.067 Positive Predictive Value McQFold: 0.480 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Vsfold4 Matthews Correlation Coefficient McQFold: 0.314 Vsfold4: 0.217 Sensitivity McQFold: 0.205 Vsfold4: 0.125 Positive Predictive Value McQFold: 0.480 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Vsfold5 Matthews Correlation Coefficient McQFold: 0.314 Vsfold5: 0.211 Sensitivity McQFold: 0.205 Vsfold5: 0.125 Positive Predictive Value McQFold: 0.480 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs RSpredict(seed) Matthews Correlation Coefficient McQFold: 0.314 RSpredict(seed): 0.212 Sensitivity McQFold: 0.205 RSpredict(seed): 0.075 Positive Predictive Value McQFold: 0.480 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs CMfinder(20) Matthews Correlation Coefficient McQFold: 0.314 CMfinder(20): 0.210 Sensitivity McQFold: 0.205 CMfinder(20): 0.055 Positive Predictive Value McQFold: 0.480 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs HotKnots Matthews Correlation Coefficient McQFold: 0.314 HotKnots: 0.179 Sensitivity McQFold: 0.205 HotKnots: 0.051 Positive Predictive Value McQFold: 0.480 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs RNASampler(20) Matthews Correlation Coefficient McQFold: 0.314 RNASampler(20): 0.176 Sensitivity McQFold: 0.205 RNASampler(20): 0.035 Positive Predictive Value McQFold: 0.480 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Cylofold Matthews Correlation Coefficient McQFold: 0.314 Cylofold: 0.155 Sensitivity McQFold: 0.205 Cylofold: 0.040 Positive Predictive Value McQFold: 0.480 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Pknots Matthews Correlation Coefficient McQFold: 0.314 Pknots: 0.143 Sensitivity McQFold: 0.205 Pknots: 0.033 Positive Predictive Value McQFold: 0.480 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Mastr(20) Matthews Correlation Coefficient McQFold: 0.314 Mastr(20): 0.134 Sensitivity McQFold: 0.205 Mastr(20): 0.023 Positive Predictive Value McQFold: 0.480 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Alterna Matthews Correlation Coefficient McQFold: 0.314 Alterna: 0.129 Sensitivity McQFold: 0.205 Alterna: 0.030 Positive Predictive Value McQFold: 0.480 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs MCFold Matthews Correlation Coefficient McQFold: 0.314 MCFold: 0.125 Sensitivity McQFold: 0.205 MCFold: 0.036 Positive Predictive Value McQFold: 0.480 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs RDfolder Matthews Correlation Coefficient McQFold: 0.314 RDfolder: 0.122 Sensitivity McQFold: 0.205 RDfolder: 0.025 Positive Predictive Value McQFold: 0.480 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Murlet(seed) Matthews Correlation Coefficient McQFold: 0.314 Murlet(seed): 0.079 Sensitivity McQFold: 0.205 Murlet(seed): 0.008 Positive Predictive Value McQFold: 0.480 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs CMfinder(seed) Matthews Correlation Coefficient McQFold: 0.314 CMfinder(seed): 0.080 Sensitivity McQFold: 0.205 CMfinder(seed): 0.008 Positive Predictive Value McQFold: 0.480 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs TurboFold(seed) Matthews Correlation Coefficient McQFold: 0.314 TurboFold(seed): 0.076 Sensitivity McQFold: 0.205 TurboFold(seed): 0.007 Positive Predictive Value McQFold: 0.480 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs PPfold(seed) Matthews Correlation Coefficient McQFold: 0.314 PPfold(seed): 0.069 Sensitivity McQFold: 0.205 PPfold(seed): 0.006 Positive Predictive Value McQFold: 0.480 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Carnac(seed) Matthews Correlation Coefficient McQFold: 0.314 Carnac(seed): 0.066 Sensitivity McQFold: 0.205 Carnac(seed): 0.005 Positive Predictive Value McQFold: 0.480 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs RNASampler(seed) Matthews Correlation Coefficient McQFold: 0.314 RNASampler(seed): 0.063 Sensitivity McQFold: 0.205 RNASampler(seed): 0.005 Positive Predictive Value McQFold: 0.480 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs NanoFolder Matthews Correlation Coefficient McQFold: 0.314 NanoFolder: 0.052 Sensitivity McQFold: 0.205 NanoFolder: 0.016 Positive Predictive Value McQFold: 0.480 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Mastr(seed) Matthews Correlation Coefficient McQFold: 0.314 Mastr(seed): 0.051 Sensitivity McQFold: 0.205 Mastr(seed): 0.003 Positive Predictive Value McQFold: 0.480 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Multilign(seed) Matthews Correlation Coefficient McQFold: 0.314 Multilign(seed): 0.043 Sensitivity McQFold: 0.205 Multilign(seed): 0.003 Positive Predictive Value McQFold: 0.480 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
TurboFold(20)	1987 ContextFold vs TurboFold(20) Matthews Correlation Coefficient ContextFold: 0.680 TurboFold(20): 0.301 Sensitivity ContextFold: 0.644 TurboFold(20): 0.108 Positive Predictive Value ContextFold: 0.718 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs TurboFold(20) Matthews Correlation Coefficient IPknot: 0.548 TurboFold(20): 0.301 Sensitivity IPknot: 0.475 TurboFold(20): 0.108 Positive Predictive Value IPknot: 0.632 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs TurboFold(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 TurboFold(20): 0.301 Sensitivity PETfold_pre2.0(seed): 0.343 TurboFold(20): 0.108 Positive Predictive Value PETfold_pre2.0(seed): 0.814 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs TurboFold(20) Matthews Correlation Coefficient Contrafold: 0.508 TurboFold(20): 0.301 Sensitivity Contrafold: 0.481 TurboFold(20): 0.108 Positive Predictive Value Contrafold: 0.537 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs TurboFold(20) Matthews Correlation Coefficient CentroidFold: 0.470 TurboFold(20): 0.301 Sensitivity CentroidFold: 0.369 TurboFold(20): 0.108 Positive Predictive Value CentroidFold: 0.600 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs TurboFold(20) Matthews Correlation Coefficient Sfold: 0.469 TurboFold(20): 0.301 Sensitivity Sfold: 0.412 TurboFold(20): 0.108 Positive Predictive Value Sfold: 0.535 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs TurboFold(20) Matthews Correlation Coefficient MaxExpect: 0.465 TurboFold(20): 0.301 Sensitivity MaxExpect: 0.443 TurboFold(20): 0.108 Positive Predictive Value MaxExpect: 0.488 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs TurboFold(20) Matthews Correlation Coefficient ProbKnot: 0.460 TurboFold(20): 0.301 Sensitivity ProbKnot: 0.446 TurboFold(20): 0.108 Positive Predictive Value ProbKnot: 0.475 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs TurboFold(20) Matthews Correlation Coefficient UNAFold: 0.445 TurboFold(20): 0.301 Sensitivity UNAFold: 0.445 TurboFold(20): 0.108 Positive Predictive Value UNAFold: 0.446 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs TurboFold(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 TurboFold(20): 0.301 Sensitivity CentroidAlifold(seed): 0.213 TurboFold(20): 0.108 Positive Predictive Value CentroidAlifold(seed): 0.901 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs TurboFold(20) Matthews Correlation Coefficient Fold: 0.437 TurboFold(20): 0.301 Sensitivity Fold: 0.432 TurboFold(20): 0.108 Positive Predictive Value Fold: 0.444 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs TurboFold(20) Matthews Correlation Coefficient RNAfold: 0.429 TurboFold(20): 0.301 Sensitivity RNAfold: 0.422 TurboFold(20): 0.108 Positive Predictive Value RNAfold: 0.437 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs TurboFold(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 TurboFold(20): 0.301 Sensitivity CentroidHomfold‑LAST: 0.216 TurboFold(20): 0.108 Positive Predictive Value CentroidHomfold‑LAST: 0.850 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs TurboFold(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 TurboFold(20): 0.301 Sensitivity PETfold_pre2.0(20): 0.211 TurboFold(20): 0.108 Positive Predictive Value PETfold_pre2.0(20): 0.807 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs TurboFold(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 TurboFold(20): 0.301 Sensitivity CentroidAlifold(20): 0.190 TurboFold(20): 0.108 Positive Predictive Value CentroidAlifold(20): 0.891 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs TurboFold(20) Matthews Correlation Coefficient PknotsRG: 0.386 TurboFold(20): 0.301 Sensitivity PknotsRG: 0.320 TurboFold(20): 0.108 Positive Predictive Value PknotsRG: 0.465 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs TurboFold(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 TurboFold(20): 0.301 Sensitivity MXScarna(seed): 0.196 TurboFold(20): 0.108 Positive Predictive Value MXScarna(seed): 0.753 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs TurboFold(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 TurboFold(20): 0.301 Sensitivity RNAalifold(20): 0.185 TurboFold(20): 0.108 Positive Predictive Value RNAalifold(20): 0.787 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs TurboFold(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 TurboFold(20): 0.301 Sensitivity RNAalifold(seed): 0.169 TurboFold(20): 0.108 Positive Predictive Value RNAalifold(seed): 0.835 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs TurboFold(20) Matthews Correlation Coefficient Afold: 0.358 TurboFold(20): 0.301 Sensitivity Afold: 0.295 TurboFold(20): 0.108 Positive Predictive Value Afold: 0.434 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs TurboFold(20) Matthews Correlation Coefficient MXScarna(20): 0.359 TurboFold(20): 0.301 Sensitivity MXScarna(20): 0.181 TurboFold(20): 0.108 Positive Predictive Value MXScarna(20): 0.710 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs TurboFold(20) Matthews Correlation Coefficient CRWrnafold: 0.346 TurboFold(20): 0.301 Sensitivity CRWrnafold: 0.275 TurboFold(20): 0.108 Positive Predictive Value CRWrnafold: 0.435 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs TurboFold(20) Matthews Correlation Coefficient RNAsubopt: 0.336 TurboFold(20): 0.301 Sensitivity RNAsubopt: 0.217 TurboFold(20): 0.108 Positive Predictive Value RNAsubopt: 0.521 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs TurboFold(20) Matthews Correlation Coefficient McQFold: 0.314 TurboFold(20): 0.301 Sensitivity McQFold: 0.205 TurboFold(20): 0.108 Positive Predictive Value McQFold: 0.480 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ TurboFold(20) vs PPfold(20) Matthews Correlation Coefficient TurboFold(20): 0.301 PPfold(20): 0.298 Sensitivity TurboFold(20): 0.108 PPfold(20): 0.101 Positive Predictive Value TurboFold(20): 0.837 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.85233844192e-08	+ TurboFold(20) vs RNAshapes Matthews Correlation Coefficient TurboFold(20): 0.301 RNAshapes: 0.295 Sensitivity TurboFold(20): 0.108 RNAshapes: 0.180 Positive Predictive Value TurboFold(20): 0.837 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.85233844192e-08	+ TurboFold(20) vs Carnac(20) Matthews Correlation Coefficient TurboFold(20): 0.301 Carnac(20): 0.288 Sensitivity TurboFold(20): 0.108 Carnac(20): 0.093 Positive Predictive Value TurboFold(20): 0.837 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs RNASLOpt Matthews Correlation Coefficient TurboFold(20): 0.301 RNASLOpt: 0.281 Sensitivity TurboFold(20): 0.108 RNASLOpt: 0.158 Positive Predictive Value TurboFold(20): 0.837 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs RSpredict(20) Matthews Correlation Coefficient TurboFold(20): 0.301 RSpredict(20): 0.270 Sensitivity TurboFold(20): 0.108 RSpredict(20): 0.124 Positive Predictive Value TurboFold(20): 0.837 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Multilign(20) Matthews Correlation Coefficient TurboFold(20): 0.301 Multilign(20): 0.251 Sensitivity TurboFold(20): 0.108 Multilign(20): 0.083 Positive Predictive Value TurboFold(20): 0.837 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs RNAwolf Matthews Correlation Coefficient TurboFold(20): 0.301 RNAwolf: 0.251 Sensitivity TurboFold(20): 0.108 RNAwolf: 0.191 Positive Predictive Value TurboFold(20): 0.837 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Murlet(20) Matthews Correlation Coefficient TurboFold(20): 0.301 Murlet(20): 0.230 Sensitivity TurboFold(20): 0.108 Murlet(20): 0.067 Positive Predictive Value TurboFold(20): 0.837 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Vsfold4 Matthews Correlation Coefficient TurboFold(20): 0.301 Vsfold4: 0.217 Sensitivity TurboFold(20): 0.108 Vsfold4: 0.125 Positive Predictive Value TurboFold(20): 0.837 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Vsfold5 Matthews Correlation Coefficient TurboFold(20): 0.301 Vsfold5: 0.211 Sensitivity TurboFold(20): 0.108 Vsfold5: 0.125 Positive Predictive Value TurboFold(20): 0.837 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs RSpredict(seed) Matthews Correlation Coefficient TurboFold(20): 0.301 RSpredict(seed): 0.212 Sensitivity TurboFold(20): 0.108 RSpredict(seed): 0.075 Positive Predictive Value TurboFold(20): 0.837 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs CMfinder(20) Matthews Correlation Coefficient TurboFold(20): 0.301 CMfinder(20): 0.210 Sensitivity TurboFold(20): 0.108 CMfinder(20): 0.055 Positive Predictive Value TurboFold(20): 0.837 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs HotKnots Matthews Correlation Coefficient TurboFold(20): 0.301 HotKnots: 0.179 Sensitivity TurboFold(20): 0.108 HotKnots: 0.051 Positive Predictive Value TurboFold(20): 0.837 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs RNASampler(20) Matthews Correlation Coefficient TurboFold(20): 0.301 RNASampler(20): 0.176 Sensitivity TurboFold(20): 0.108 RNASampler(20): 0.035 Positive Predictive Value TurboFold(20): 0.837 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Cylofold Matthews Correlation Coefficient TurboFold(20): 0.301 Cylofold: 0.155 Sensitivity TurboFold(20): 0.108 Cylofold: 0.040 Positive Predictive Value TurboFold(20): 0.837 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Pknots Matthews Correlation Coefficient TurboFold(20): 0.301 Pknots: 0.143 Sensitivity TurboFold(20): 0.108 Pknots: 0.033 Positive Predictive Value TurboFold(20): 0.837 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Mastr(20) Matthews Correlation Coefficient TurboFold(20): 0.301 Mastr(20): 0.134 Sensitivity TurboFold(20): 0.108 Mastr(20): 0.023 Positive Predictive Value TurboFold(20): 0.837 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Alterna Matthews Correlation Coefficient TurboFold(20): 0.301 Alterna: 0.129 Sensitivity TurboFold(20): 0.108 Alterna: 0.030 Positive Predictive Value TurboFold(20): 0.837 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs MCFold Matthews Correlation Coefficient TurboFold(20): 0.301 MCFold: 0.125 Sensitivity TurboFold(20): 0.108 MCFold: 0.036 Positive Predictive Value TurboFold(20): 0.837 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs RDfolder Matthews Correlation Coefficient TurboFold(20): 0.301 RDfolder: 0.122 Sensitivity TurboFold(20): 0.108 RDfolder: 0.025 Positive Predictive Value TurboFold(20): 0.837 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Murlet(seed) Matthews Correlation Coefficient TurboFold(20): 0.301 Murlet(seed): 0.079 Sensitivity TurboFold(20): 0.108 Murlet(seed): 0.008 Positive Predictive Value TurboFold(20): 0.837 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs CMfinder(seed) Matthews Correlation Coefficient TurboFold(20): 0.301 CMfinder(seed): 0.080 Sensitivity TurboFold(20): 0.108 CMfinder(seed): 0.008 Positive Predictive Value TurboFold(20): 0.837 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs TurboFold(seed) Matthews Correlation Coefficient TurboFold(20): 0.301 TurboFold(seed): 0.076 Sensitivity TurboFold(20): 0.108 TurboFold(seed): 0.007 Positive Predictive Value TurboFold(20): 0.837 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs PPfold(seed) Matthews Correlation Coefficient TurboFold(20): 0.301 PPfold(seed): 0.069 Sensitivity TurboFold(20): 0.108 PPfold(seed): 0.006 Positive Predictive Value TurboFold(20): 0.837 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Carnac(seed) Matthews Correlation Coefficient TurboFold(20): 0.301 Carnac(seed): 0.066 Sensitivity TurboFold(20): 0.108 Carnac(seed): 0.005 Positive Predictive Value TurboFold(20): 0.837 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs RNASampler(seed) Matthews Correlation Coefficient TurboFold(20): 0.301 RNASampler(seed): 0.063 Sensitivity TurboFold(20): 0.108 RNASampler(seed): 0.005 Positive Predictive Value TurboFold(20): 0.837 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs NanoFolder Matthews Correlation Coefficient TurboFold(20): 0.301 NanoFolder: 0.052 Sensitivity TurboFold(20): 0.108 NanoFolder: 0.016 Positive Predictive Value TurboFold(20): 0.837 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Mastr(seed) Matthews Correlation Coefficient TurboFold(20): 0.301 Mastr(seed): 0.051 Sensitivity TurboFold(20): 0.108 Mastr(seed): 0.003 Positive Predictive Value TurboFold(20): 0.837 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Multilign(seed) Matthews Correlation Coefficient TurboFold(20): 0.301 Multilign(seed): 0.043 Sensitivity TurboFold(20): 0.108 Multilign(seed): 0.003 Positive Predictive Value TurboFold(20): 0.837 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
PPfold(20)	1987 ContextFold vs PPfold(20) Matthews Correlation Coefficient ContextFold: 0.680 PPfold(20): 0.298 Sensitivity ContextFold: 0.644 PPfold(20): 0.101 Positive Predictive Value ContextFold: 0.718 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs PPfold(20) Matthews Correlation Coefficient IPknot: 0.548 PPfold(20): 0.298 Sensitivity IPknot: 0.475 PPfold(20): 0.101 Positive Predictive Value IPknot: 0.632 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs PPfold(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 PPfold(20): 0.298 Sensitivity PETfold_pre2.0(seed): 0.343 PPfold(20): 0.101 Positive Predictive Value PETfold_pre2.0(seed): 0.814 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs PPfold(20) Matthews Correlation Coefficient Contrafold: 0.508 PPfold(20): 0.298 Sensitivity Contrafold: 0.481 PPfold(20): 0.101 Positive Predictive Value Contrafold: 0.537 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs PPfold(20) Matthews Correlation Coefficient CentroidFold: 0.470 PPfold(20): 0.298 Sensitivity CentroidFold: 0.369 PPfold(20): 0.101 Positive Predictive Value CentroidFold: 0.600 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs PPfold(20) Matthews Correlation Coefficient Sfold: 0.469 PPfold(20): 0.298 Sensitivity Sfold: 0.412 PPfold(20): 0.101 Positive Predictive Value Sfold: 0.535 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs PPfold(20) Matthews Correlation Coefficient MaxExpect: 0.465 PPfold(20): 0.298 Sensitivity MaxExpect: 0.443 PPfold(20): 0.101 Positive Predictive Value MaxExpect: 0.488 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs PPfold(20) Matthews Correlation Coefficient ProbKnot: 0.460 PPfold(20): 0.298 Sensitivity ProbKnot: 0.446 PPfold(20): 0.101 Positive Predictive Value ProbKnot: 0.475 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs PPfold(20) Matthews Correlation Coefficient UNAFold: 0.445 PPfold(20): 0.298 Sensitivity UNAFold: 0.445 PPfold(20): 0.101 Positive Predictive Value UNAFold: 0.446 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs PPfold(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 PPfold(20): 0.298 Sensitivity CentroidAlifold(seed): 0.213 PPfold(20): 0.101 Positive Predictive Value CentroidAlifold(seed): 0.901 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs PPfold(20) Matthews Correlation Coefficient Fold: 0.437 PPfold(20): 0.298 Sensitivity Fold: 0.432 PPfold(20): 0.101 Positive Predictive Value Fold: 0.444 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs PPfold(20) Matthews Correlation Coefficient RNAfold: 0.429 PPfold(20): 0.298 Sensitivity RNAfold: 0.422 PPfold(20): 0.101 Positive Predictive Value RNAfold: 0.437 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs PPfold(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 PPfold(20): 0.298 Sensitivity CentroidHomfold‑LAST: 0.216 PPfold(20): 0.101 Positive Predictive Value CentroidHomfold‑LAST: 0.850 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs PPfold(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 PPfold(20): 0.298 Sensitivity PETfold_pre2.0(20): 0.211 PPfold(20): 0.101 Positive Predictive Value PETfold_pre2.0(20): 0.807 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs PPfold(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 PPfold(20): 0.298 Sensitivity CentroidAlifold(20): 0.190 PPfold(20): 0.101 Positive Predictive Value CentroidAlifold(20): 0.891 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs PPfold(20) Matthews Correlation Coefficient PknotsRG: 0.386 PPfold(20): 0.298 Sensitivity PknotsRG: 0.320 PPfold(20): 0.101 Positive Predictive Value PknotsRG: 0.465 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs PPfold(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 PPfold(20): 0.298 Sensitivity MXScarna(seed): 0.196 PPfold(20): 0.101 Positive Predictive Value MXScarna(seed): 0.753 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs PPfold(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 PPfold(20): 0.298 Sensitivity RNAalifold(20): 0.185 PPfold(20): 0.101 Positive Predictive Value RNAalifold(20): 0.787 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs PPfold(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 PPfold(20): 0.298 Sensitivity RNAalifold(seed): 0.169 PPfold(20): 0.101 Positive Predictive Value RNAalifold(seed): 0.835 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs PPfold(20) Matthews Correlation Coefficient Afold: 0.358 PPfold(20): 0.298 Sensitivity Afold: 0.295 PPfold(20): 0.101 Positive Predictive Value Afold: 0.434 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs PPfold(20) Matthews Correlation Coefficient MXScarna(20): 0.359 PPfold(20): 0.298 Sensitivity MXScarna(20): 0.181 PPfold(20): 0.101 Positive Predictive Value MXScarna(20): 0.710 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs PPfold(20) Matthews Correlation Coefficient CRWrnafold: 0.346 PPfold(20): 0.298 Sensitivity CRWrnafold: 0.275 PPfold(20): 0.101 Positive Predictive Value CRWrnafold: 0.435 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs PPfold(20) Matthews Correlation Coefficient RNAsubopt: 0.336 PPfold(20): 0.298 Sensitivity RNAsubopt: 0.217 PPfold(20): 0.101 Positive Predictive Value RNAsubopt: 0.521 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs PPfold(20) Matthews Correlation Coefficient McQFold: 0.314 PPfold(20): 0.298 Sensitivity McQFold: 0.205 PPfold(20): 0.101 Positive Predictive Value McQFold: 0.480 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs PPfold(20) Matthews Correlation Coefficient TurboFold(20): 0.301 PPfold(20): 0.298 Sensitivity TurboFold(20): 0.108 PPfold(20): 0.101 Positive Predictive Value TurboFold(20): 0.837 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.85233844192e-08		+ PPfold(20) vs RNAshapes Matthews Correlation Coefficient PPfold(20): 0.298 RNAshapes: 0.295 Sensitivity PPfold(20): 0.101 RNAshapes: 0.180 Positive Predictive Value PPfold(20): 0.879 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 2.82781450476e-07	+ PPfold(20) vs Carnac(20) Matthews Correlation Coefficient PPfold(20): 0.298 Carnac(20): 0.288 Sensitivity PPfold(20): 0.101 Carnac(20): 0.093 Positive Predictive Value PPfold(20): 0.879 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs RNASLOpt Matthews Correlation Coefficient PPfold(20): 0.298 RNASLOpt: 0.281 Sensitivity PPfold(20): 0.101 RNASLOpt: 0.158 Positive Predictive Value PPfold(20): 0.879 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs RSpredict(20) Matthews Correlation Coefficient PPfold(20): 0.298 RSpredict(20): 0.270 Sensitivity PPfold(20): 0.101 RSpredict(20): 0.124 Positive Predictive Value PPfold(20): 0.879 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Multilign(20) Matthews Correlation Coefficient PPfold(20): 0.298 Multilign(20): 0.251 Sensitivity PPfold(20): 0.101 Multilign(20): 0.083 Positive Predictive Value PPfold(20): 0.879 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs RNAwolf Matthews Correlation Coefficient PPfold(20): 0.298 RNAwolf: 0.251 Sensitivity PPfold(20): 0.101 RNAwolf: 0.191 Positive Predictive Value PPfold(20): 0.879 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Murlet(20) Matthews Correlation Coefficient PPfold(20): 0.298 Murlet(20): 0.230 Sensitivity PPfold(20): 0.101 Murlet(20): 0.067 Positive Predictive Value PPfold(20): 0.879 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Vsfold4 Matthews Correlation Coefficient PPfold(20): 0.298 Vsfold4: 0.217 Sensitivity PPfold(20): 0.101 Vsfold4: 0.125 Positive Predictive Value PPfold(20): 0.879 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Vsfold5 Matthews Correlation Coefficient PPfold(20): 0.298 Vsfold5: 0.211 Sensitivity PPfold(20): 0.101 Vsfold5: 0.125 Positive Predictive Value PPfold(20): 0.879 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs RSpredict(seed) Matthews Correlation Coefficient PPfold(20): 0.298 RSpredict(seed): 0.212 Sensitivity PPfold(20): 0.101 RSpredict(seed): 0.075 Positive Predictive Value PPfold(20): 0.879 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs CMfinder(20) Matthews Correlation Coefficient PPfold(20): 0.298 CMfinder(20): 0.210 Sensitivity PPfold(20): 0.101 CMfinder(20): 0.055 Positive Predictive Value PPfold(20): 0.879 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs HotKnots Matthews Correlation Coefficient PPfold(20): 0.298 HotKnots: 0.179 Sensitivity PPfold(20): 0.101 HotKnots: 0.051 Positive Predictive Value PPfold(20): 0.879 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs RNASampler(20) Matthews Correlation Coefficient PPfold(20): 0.298 RNASampler(20): 0.176 Sensitivity PPfold(20): 0.101 RNASampler(20): 0.035 Positive Predictive Value PPfold(20): 0.879 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Cylofold Matthews Correlation Coefficient PPfold(20): 0.298 Cylofold: 0.155 Sensitivity PPfold(20): 0.101 Cylofold: 0.040 Positive Predictive Value PPfold(20): 0.879 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Pknots Matthews Correlation Coefficient PPfold(20): 0.298 Pknots: 0.143 Sensitivity PPfold(20): 0.101 Pknots: 0.033 Positive Predictive Value PPfold(20): 0.879 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Mastr(20) Matthews Correlation Coefficient PPfold(20): 0.298 Mastr(20): 0.134 Sensitivity PPfold(20): 0.101 Mastr(20): 0.023 Positive Predictive Value PPfold(20): 0.879 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Alterna Matthews Correlation Coefficient PPfold(20): 0.298 Alterna: 0.129 Sensitivity PPfold(20): 0.101 Alterna: 0.030 Positive Predictive Value PPfold(20): 0.879 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs MCFold Matthews Correlation Coefficient PPfold(20): 0.298 MCFold: 0.125 Sensitivity PPfold(20): 0.101 MCFold: 0.036 Positive Predictive Value PPfold(20): 0.879 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs RDfolder Matthews Correlation Coefficient PPfold(20): 0.298 RDfolder: 0.122 Sensitivity PPfold(20): 0.101 RDfolder: 0.025 Positive Predictive Value PPfold(20): 0.879 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Murlet(seed) Matthews Correlation Coefficient PPfold(20): 0.298 Murlet(seed): 0.079 Sensitivity PPfold(20): 0.101 Murlet(seed): 0.008 Positive Predictive Value PPfold(20): 0.879 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs CMfinder(seed) Matthews Correlation Coefficient PPfold(20): 0.298 CMfinder(seed): 0.080 Sensitivity PPfold(20): 0.101 CMfinder(seed): 0.008 Positive Predictive Value PPfold(20): 0.879 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs TurboFold(seed) Matthews Correlation Coefficient PPfold(20): 0.298 TurboFold(seed): 0.076 Sensitivity PPfold(20): 0.101 TurboFold(seed): 0.007 Positive Predictive Value PPfold(20): 0.879 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs PPfold(seed) Matthews Correlation Coefficient PPfold(20): 0.298 PPfold(seed): 0.069 Sensitivity PPfold(20): 0.101 PPfold(seed): 0.006 Positive Predictive Value PPfold(20): 0.879 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Carnac(seed) Matthews Correlation Coefficient PPfold(20): 0.298 Carnac(seed): 0.066 Sensitivity PPfold(20): 0.101 Carnac(seed): 0.005 Positive Predictive Value PPfold(20): 0.879 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs RNASampler(seed) Matthews Correlation Coefficient PPfold(20): 0.298 RNASampler(seed): 0.063 Sensitivity PPfold(20): 0.101 RNASampler(seed): 0.005 Positive Predictive Value PPfold(20): 0.879 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs NanoFolder Matthews Correlation Coefficient PPfold(20): 0.298 NanoFolder: 0.052 Sensitivity PPfold(20): 0.101 NanoFolder: 0.016 Positive Predictive Value PPfold(20): 0.879 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Mastr(seed) Matthews Correlation Coefficient PPfold(20): 0.298 Mastr(seed): 0.051 Sensitivity PPfold(20): 0.101 Mastr(seed): 0.003 Positive Predictive Value PPfold(20): 0.879 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Multilign(seed) Matthews Correlation Coefficient PPfold(20): 0.298 Multilign(seed): 0.043 Sensitivity PPfold(20): 0.101 Multilign(seed): 0.003 Positive Predictive Value PPfold(20): 0.879 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
RNAshapes	1987 ContextFold vs RNAshapes Matthews Correlation Coefficient ContextFold: 0.680 RNAshapes: 0.295 Sensitivity ContextFold: 0.644 RNAshapes: 0.180 Positive Predictive Value ContextFold: 0.718 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs RNAshapes Matthews Correlation Coefficient IPknot: 0.548 RNAshapes: 0.295 Sensitivity IPknot: 0.475 RNAshapes: 0.180 Positive Predictive Value IPknot: 0.632 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs RNAshapes Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RNAshapes: 0.295 Sensitivity PETfold_pre2.0(seed): 0.343 RNAshapes: 0.180 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs RNAshapes Matthews Correlation Coefficient Contrafold: 0.508 RNAshapes: 0.295 Sensitivity Contrafold: 0.481 RNAshapes: 0.180 Positive Predictive Value Contrafold: 0.537 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs RNAshapes Matthews Correlation Coefficient CentroidFold: 0.470 RNAshapes: 0.295 Sensitivity CentroidFold: 0.369 RNAshapes: 0.180 Positive Predictive Value CentroidFold: 0.600 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs RNAshapes Matthews Correlation Coefficient Sfold: 0.469 RNAshapes: 0.295 Sensitivity Sfold: 0.412 RNAshapes: 0.180 Positive Predictive Value Sfold: 0.535 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs RNAshapes Matthews Correlation Coefficient MaxExpect: 0.465 RNAshapes: 0.295 Sensitivity MaxExpect: 0.443 RNAshapes: 0.180 Positive Predictive Value MaxExpect: 0.488 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs RNAshapes Matthews Correlation Coefficient ProbKnot: 0.460 RNAshapes: 0.295 Sensitivity ProbKnot: 0.446 RNAshapes: 0.180 Positive Predictive Value ProbKnot: 0.475 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs RNAshapes Matthews Correlation Coefficient UNAFold: 0.445 RNAshapes: 0.295 Sensitivity UNAFold: 0.445 RNAshapes: 0.180 Positive Predictive Value UNAFold: 0.446 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs RNAshapes Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RNAshapes: 0.295 Sensitivity CentroidAlifold(seed): 0.213 RNAshapes: 0.180 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs RNAshapes Matthews Correlation Coefficient Fold: 0.437 RNAshapes: 0.295 Sensitivity Fold: 0.432 RNAshapes: 0.180 Positive Predictive Value Fold: 0.444 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs RNAshapes Matthews Correlation Coefficient RNAfold: 0.429 RNAshapes: 0.295 Sensitivity RNAfold: 0.422 RNAshapes: 0.180 Positive Predictive Value RNAfold: 0.437 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs RNAshapes Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RNAshapes: 0.295 Sensitivity CentroidHomfold‑LAST: 0.216 RNAshapes: 0.180 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs RNAshapes Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RNAshapes: 0.295 Sensitivity PETfold_pre2.0(20): 0.211 RNAshapes: 0.180 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs RNAshapes Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RNAshapes: 0.295 Sensitivity CentroidAlifold(20): 0.190 RNAshapes: 0.180 Positive Predictive Value CentroidAlifold(20): 0.891 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs RNAshapes Matthews Correlation Coefficient PknotsRG: 0.386 RNAshapes: 0.295 Sensitivity PknotsRG: 0.320 RNAshapes: 0.180 Positive Predictive Value PknotsRG: 0.465 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs RNAshapes Matthews Correlation Coefficient MXScarna(seed): 0.385 RNAshapes: 0.295 Sensitivity MXScarna(seed): 0.196 RNAshapes: 0.180 Positive Predictive Value MXScarna(seed): 0.753 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs RNAshapes Matthews Correlation Coefficient RNAalifold(20): 0.381 RNAshapes: 0.295 Sensitivity RNAalifold(20): 0.185 RNAshapes: 0.180 Positive Predictive Value RNAalifold(20): 0.787 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs RNAshapes Matthews Correlation Coefficient RNAalifold(seed): 0.375 RNAshapes: 0.295 Sensitivity RNAalifold(seed): 0.169 RNAshapes: 0.180 Positive Predictive Value RNAalifold(seed): 0.835 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs RNAshapes Matthews Correlation Coefficient Afold: 0.358 RNAshapes: 0.295 Sensitivity Afold: 0.295 RNAshapes: 0.180 Positive Predictive Value Afold: 0.434 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs RNAshapes Matthews Correlation Coefficient MXScarna(20): 0.359 RNAshapes: 0.295 Sensitivity MXScarna(20): 0.181 RNAshapes: 0.180 Positive Predictive Value MXScarna(20): 0.710 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs RNAshapes Matthews Correlation Coefficient CRWrnafold: 0.346 RNAshapes: 0.295 Sensitivity CRWrnafold: 0.275 RNAshapes: 0.180 Positive Predictive Value CRWrnafold: 0.435 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs RNAshapes Matthews Correlation Coefficient RNAsubopt: 0.336 RNAshapes: 0.295 Sensitivity RNAsubopt: 0.217 RNAshapes: 0.180 Positive Predictive Value RNAsubopt: 0.521 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs RNAshapes Matthews Correlation Coefficient McQFold: 0.314 RNAshapes: 0.295 Sensitivity McQFold: 0.205 RNAshapes: 0.180 Positive Predictive Value McQFold: 0.480 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs RNAshapes Matthews Correlation Coefficient TurboFold(20): 0.301 RNAshapes: 0.295 Sensitivity TurboFold(20): 0.108 RNAshapes: 0.180 Positive Predictive Value TurboFold(20): 0.837 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.85233844192e-08	1987 PPfold(20) vs RNAshapes Matthews Correlation Coefficient PPfold(20): 0.298 RNAshapes: 0.295 Sensitivity PPfold(20): 0.101 RNAshapes: 0.180 Positive Predictive Value PPfold(20): 0.879 RNAshapes: 0.484 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 2.82781450476e-07		+ RNAshapes vs Carnac(20) Matthews Correlation Coefficient RNAshapes: 0.295 Carnac(20): 0.288 Sensitivity RNAshapes: 0.180 Carnac(20): 0.093 Positive Predictive Value RNAshapes: 0.484 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 4.48494289621e-08	+ RNAshapes vs RNASLOpt Matthews Correlation Coefficient RNAshapes: 0.295 RNASLOpt: 0.281 Sensitivity RNAshapes: 0.180 RNASLOpt: 0.158 Positive Predictive Value RNAshapes: 0.484 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs RSpredict(20) Matthews Correlation Coefficient RNAshapes: 0.295 RSpredict(20): 0.270 Sensitivity RNAshapes: 0.180 RSpredict(20): 0.124 Positive Predictive Value RNAshapes: 0.484 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Multilign(20) Matthews Correlation Coefficient RNAshapes: 0.295 Multilign(20): 0.251 Sensitivity RNAshapes: 0.180 Multilign(20): 0.083 Positive Predictive Value RNAshapes: 0.484 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs RNAwolf Matthews Correlation Coefficient RNAshapes: 0.295 RNAwolf: 0.251 Sensitivity RNAshapes: 0.180 RNAwolf: 0.191 Positive Predictive Value RNAshapes: 0.484 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Murlet(20) Matthews Correlation Coefficient RNAshapes: 0.295 Murlet(20): 0.230 Sensitivity RNAshapes: 0.180 Murlet(20): 0.067 Positive Predictive Value RNAshapes: 0.484 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Vsfold4 Matthews Correlation Coefficient RNAshapes: 0.295 Vsfold4: 0.217 Sensitivity RNAshapes: 0.180 Vsfold4: 0.125 Positive Predictive Value RNAshapes: 0.484 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Vsfold5 Matthews Correlation Coefficient RNAshapes: 0.295 Vsfold5: 0.211 Sensitivity RNAshapes: 0.180 Vsfold5: 0.125 Positive Predictive Value RNAshapes: 0.484 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs RSpredict(seed) Matthews Correlation Coefficient RNAshapes: 0.295 RSpredict(seed): 0.212 Sensitivity RNAshapes: 0.180 RSpredict(seed): 0.075 Positive Predictive Value RNAshapes: 0.484 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs CMfinder(20) Matthews Correlation Coefficient RNAshapes: 0.295 CMfinder(20): 0.210 Sensitivity RNAshapes: 0.180 CMfinder(20): 0.055 Positive Predictive Value RNAshapes: 0.484 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs HotKnots Matthews Correlation Coefficient RNAshapes: 0.295 HotKnots: 0.179 Sensitivity RNAshapes: 0.180 HotKnots: 0.051 Positive Predictive Value RNAshapes: 0.484 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs RNASampler(20) Matthews Correlation Coefficient RNAshapes: 0.295 RNASampler(20): 0.176 Sensitivity RNAshapes: 0.180 RNASampler(20): 0.035 Positive Predictive Value RNAshapes: 0.484 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Cylofold Matthews Correlation Coefficient RNAshapes: 0.295 Cylofold: 0.155 Sensitivity RNAshapes: 0.180 Cylofold: 0.040 Positive Predictive Value RNAshapes: 0.484 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Pknots Matthews Correlation Coefficient RNAshapes: 0.295 Pknots: 0.143 Sensitivity RNAshapes: 0.180 Pknots: 0.033 Positive Predictive Value RNAshapes: 0.484 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Mastr(20) Matthews Correlation Coefficient RNAshapes: 0.295 Mastr(20): 0.134 Sensitivity RNAshapes: 0.180 Mastr(20): 0.023 Positive Predictive Value RNAshapes: 0.484 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Alterna Matthews Correlation Coefficient RNAshapes: 0.295 Alterna: 0.129 Sensitivity RNAshapes: 0.180 Alterna: 0.030 Positive Predictive Value RNAshapes: 0.484 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs MCFold Matthews Correlation Coefficient RNAshapes: 0.295 MCFold: 0.125 Sensitivity RNAshapes: 0.180 MCFold: 0.036 Positive Predictive Value RNAshapes: 0.484 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs RDfolder Matthews Correlation Coefficient RNAshapes: 0.295 RDfolder: 0.122 Sensitivity RNAshapes: 0.180 RDfolder: 0.025 Positive Predictive Value RNAshapes: 0.484 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Murlet(seed) Matthews Correlation Coefficient RNAshapes: 0.295 Murlet(seed): 0.079 Sensitivity RNAshapes: 0.180 Murlet(seed): 0.008 Positive Predictive Value RNAshapes: 0.484 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs CMfinder(seed) Matthews Correlation Coefficient RNAshapes: 0.295 CMfinder(seed): 0.080 Sensitivity RNAshapes: 0.180 CMfinder(seed): 0.008 Positive Predictive Value RNAshapes: 0.484 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs TurboFold(seed) Matthews Correlation Coefficient RNAshapes: 0.295 TurboFold(seed): 0.076 Sensitivity RNAshapes: 0.180 TurboFold(seed): 0.007 Positive Predictive Value RNAshapes: 0.484 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs PPfold(seed) Matthews Correlation Coefficient RNAshapes: 0.295 PPfold(seed): 0.069 Sensitivity RNAshapes: 0.180 PPfold(seed): 0.006 Positive Predictive Value RNAshapes: 0.484 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Carnac(seed) Matthews Correlation Coefficient RNAshapes: 0.295 Carnac(seed): 0.066 Sensitivity RNAshapes: 0.180 Carnac(seed): 0.005 Positive Predictive Value RNAshapes: 0.484 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs RNASampler(seed) Matthews Correlation Coefficient RNAshapes: 0.295 RNASampler(seed): 0.063 Sensitivity RNAshapes: 0.180 RNASampler(seed): 0.005 Positive Predictive Value RNAshapes: 0.484 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs NanoFolder Matthews Correlation Coefficient RNAshapes: 0.295 NanoFolder: 0.052 Sensitivity RNAshapes: 0.180 NanoFolder: 0.016 Positive Predictive Value RNAshapes: 0.484 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Mastr(seed) Matthews Correlation Coefficient RNAshapes: 0.295 Mastr(seed): 0.051 Sensitivity RNAshapes: 0.180 Mastr(seed): 0.003 Positive Predictive Value RNAshapes: 0.484 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Multilign(seed) Matthews Correlation Coefficient RNAshapes: 0.295 Multilign(seed): 0.043 Sensitivity RNAshapes: 0.180 Multilign(seed): 0.003 Positive Predictive Value RNAshapes: 0.484 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
Carnac(20)	1987 ContextFold vs Carnac(20) Matthews Correlation Coefficient ContextFold: 0.680 Carnac(20): 0.288 Sensitivity ContextFold: 0.644 Carnac(20): 0.093 Positive Predictive Value ContextFold: 0.718 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs Carnac(20) Matthews Correlation Coefficient IPknot: 0.548 Carnac(20): 0.288 Sensitivity IPknot: 0.475 Carnac(20): 0.093 Positive Predictive Value IPknot: 0.632 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs Carnac(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Carnac(20): 0.288 Sensitivity PETfold_pre2.0(seed): 0.343 Carnac(20): 0.093 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs Carnac(20) Matthews Correlation Coefficient Contrafold: 0.508 Carnac(20): 0.288 Sensitivity Contrafold: 0.481 Carnac(20): 0.093 Positive Predictive Value Contrafold: 0.537 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs Carnac(20) Matthews Correlation Coefficient CentroidFold: 0.470 Carnac(20): 0.288 Sensitivity CentroidFold: 0.369 Carnac(20): 0.093 Positive Predictive Value CentroidFold: 0.600 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs Carnac(20) Matthews Correlation Coefficient Sfold: 0.469 Carnac(20): 0.288 Sensitivity Sfold: 0.412 Carnac(20): 0.093 Positive Predictive Value Sfold: 0.535 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs Carnac(20) Matthews Correlation Coefficient MaxExpect: 0.465 Carnac(20): 0.288 Sensitivity MaxExpect: 0.443 Carnac(20): 0.093 Positive Predictive Value MaxExpect: 0.488 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs Carnac(20) Matthews Correlation Coefficient ProbKnot: 0.460 Carnac(20): 0.288 Sensitivity ProbKnot: 0.446 Carnac(20): 0.093 Positive Predictive Value ProbKnot: 0.475 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs Carnac(20) Matthews Correlation Coefficient UNAFold: 0.445 Carnac(20): 0.288 Sensitivity UNAFold: 0.445 Carnac(20): 0.093 Positive Predictive Value UNAFold: 0.446 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs Carnac(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Carnac(20): 0.288 Sensitivity CentroidAlifold(seed): 0.213 Carnac(20): 0.093 Positive Predictive Value CentroidAlifold(seed): 0.901 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs Carnac(20) Matthews Correlation Coefficient Fold: 0.437 Carnac(20): 0.288 Sensitivity Fold: 0.432 Carnac(20): 0.093 Positive Predictive Value Fold: 0.444 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs Carnac(20) Matthews Correlation Coefficient RNAfold: 0.429 Carnac(20): 0.288 Sensitivity RNAfold: 0.422 Carnac(20): 0.093 Positive Predictive Value RNAfold: 0.437 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs Carnac(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Carnac(20): 0.288 Sensitivity CentroidHomfold‑LAST: 0.216 Carnac(20): 0.093 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs Carnac(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Carnac(20): 0.288 Sensitivity PETfold_pre2.0(20): 0.211 Carnac(20): 0.093 Positive Predictive Value PETfold_pre2.0(20): 0.807 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs Carnac(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Carnac(20): 0.288 Sensitivity CentroidAlifold(20): 0.190 Carnac(20): 0.093 Positive Predictive Value CentroidAlifold(20): 0.891 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs Carnac(20) Matthews Correlation Coefficient PknotsRG: 0.386 Carnac(20): 0.288 Sensitivity PknotsRG: 0.320 Carnac(20): 0.093 Positive Predictive Value PknotsRG: 0.465 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs Carnac(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 Carnac(20): 0.288 Sensitivity MXScarna(seed): 0.196 Carnac(20): 0.093 Positive Predictive Value MXScarna(seed): 0.753 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs Carnac(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 Carnac(20): 0.288 Sensitivity RNAalifold(20): 0.185 Carnac(20): 0.093 Positive Predictive Value RNAalifold(20): 0.787 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs Carnac(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 Carnac(20): 0.288 Sensitivity RNAalifold(seed): 0.169 Carnac(20): 0.093 Positive Predictive Value RNAalifold(seed): 0.835 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs Carnac(20) Matthews Correlation Coefficient Afold: 0.358 Carnac(20): 0.288 Sensitivity Afold: 0.295 Carnac(20): 0.093 Positive Predictive Value Afold: 0.434 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs Carnac(20) Matthews Correlation Coefficient MXScarna(20): 0.359 Carnac(20): 0.288 Sensitivity MXScarna(20): 0.181 Carnac(20): 0.093 Positive Predictive Value MXScarna(20): 0.710 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs Carnac(20) Matthews Correlation Coefficient CRWrnafold: 0.346 Carnac(20): 0.288 Sensitivity CRWrnafold: 0.275 Carnac(20): 0.093 Positive Predictive Value CRWrnafold: 0.435 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs Carnac(20) Matthews Correlation Coefficient RNAsubopt: 0.336 Carnac(20): 0.288 Sensitivity RNAsubopt: 0.217 Carnac(20): 0.093 Positive Predictive Value RNAsubopt: 0.521 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs Carnac(20) Matthews Correlation Coefficient McQFold: 0.314 Carnac(20): 0.288 Sensitivity McQFold: 0.205 Carnac(20): 0.093 Positive Predictive Value McQFold: 0.480 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs Carnac(20) Matthews Correlation Coefficient TurboFold(20): 0.301 Carnac(20): 0.288 Sensitivity TurboFold(20): 0.108 Carnac(20): 0.093 Positive Predictive Value TurboFold(20): 0.837 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs Carnac(20) Matthews Correlation Coefficient PPfold(20): 0.298 Carnac(20): 0.288 Sensitivity PPfold(20): 0.101 Carnac(20): 0.093 Positive Predictive Value PPfold(20): 0.879 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs Carnac(20) Matthews Correlation Coefficient RNAshapes: 0.295 Carnac(20): 0.288 Sensitivity RNAshapes: 0.180 Carnac(20): 0.093 Positive Predictive Value RNAshapes: 0.484 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 4.48494289621e-08		+ Carnac(20) vs RNASLOpt Matthews Correlation Coefficient Carnac(20): 0.288 RNASLOpt: 0.281 Sensitivity Carnac(20): 0.093 RNASLOpt: 0.158 Positive Predictive Value Carnac(20): 0.892 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 6.06606238843e-08	+ Carnac(20) vs RSpredict(20) Matthews Correlation Coefficient Carnac(20): 0.288 RSpredict(20): 0.270 Sensitivity Carnac(20): 0.093 RSpredict(20): 0.124 Positive Predictive Value Carnac(20): 0.892 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Multilign(20) Matthews Correlation Coefficient Carnac(20): 0.288 Multilign(20): 0.251 Sensitivity Carnac(20): 0.093 Multilign(20): 0.083 Positive Predictive Value Carnac(20): 0.892 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs RNAwolf Matthews Correlation Coefficient Carnac(20): 0.288 RNAwolf: 0.251 Sensitivity Carnac(20): 0.093 RNAwolf: 0.191 Positive Predictive Value Carnac(20): 0.892 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Murlet(20) Matthews Correlation Coefficient Carnac(20): 0.288 Murlet(20): 0.230 Sensitivity Carnac(20): 0.093 Murlet(20): 0.067 Positive Predictive Value Carnac(20): 0.892 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Vsfold4 Matthews Correlation Coefficient Carnac(20): 0.288 Vsfold4: 0.217 Sensitivity Carnac(20): 0.093 Vsfold4: 0.125 Positive Predictive Value Carnac(20): 0.892 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Vsfold5 Matthews Correlation Coefficient Carnac(20): 0.288 Vsfold5: 0.211 Sensitivity Carnac(20): 0.093 Vsfold5: 0.125 Positive Predictive Value Carnac(20): 0.892 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs RSpredict(seed) Matthews Correlation Coefficient Carnac(20): 0.288 RSpredict(seed): 0.212 Sensitivity Carnac(20): 0.093 RSpredict(seed): 0.075 Positive Predictive Value Carnac(20): 0.892 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs CMfinder(20) Matthews Correlation Coefficient Carnac(20): 0.288 CMfinder(20): 0.210 Sensitivity Carnac(20): 0.093 CMfinder(20): 0.055 Positive Predictive Value Carnac(20): 0.892 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs HotKnots Matthews Correlation Coefficient Carnac(20): 0.288 HotKnots: 0.179 Sensitivity Carnac(20): 0.093 HotKnots: 0.051 Positive Predictive Value Carnac(20): 0.892 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs RNASampler(20) Matthews Correlation Coefficient Carnac(20): 0.288 RNASampler(20): 0.176 Sensitivity Carnac(20): 0.093 RNASampler(20): 0.035 Positive Predictive Value Carnac(20): 0.892 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Cylofold Matthews Correlation Coefficient Carnac(20): 0.288 Cylofold: 0.155 Sensitivity Carnac(20): 0.093 Cylofold: 0.040 Positive Predictive Value Carnac(20): 0.892 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Pknots Matthews Correlation Coefficient Carnac(20): 0.288 Pknots: 0.143 Sensitivity Carnac(20): 0.093 Pknots: 0.033 Positive Predictive Value Carnac(20): 0.892 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Mastr(20) Matthews Correlation Coefficient Carnac(20): 0.288 Mastr(20): 0.134 Sensitivity Carnac(20): 0.093 Mastr(20): 0.023 Positive Predictive Value Carnac(20): 0.892 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Alterna Matthews Correlation Coefficient Carnac(20): 0.288 Alterna: 0.129 Sensitivity Carnac(20): 0.093 Alterna: 0.030 Positive Predictive Value Carnac(20): 0.892 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs MCFold Matthews Correlation Coefficient Carnac(20): 0.288 MCFold: 0.125 Sensitivity Carnac(20): 0.093 MCFold: 0.036 Positive Predictive Value Carnac(20): 0.892 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs RDfolder Matthews Correlation Coefficient Carnac(20): 0.288 RDfolder: 0.122 Sensitivity Carnac(20): 0.093 RDfolder: 0.025 Positive Predictive Value Carnac(20): 0.892 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Murlet(seed) Matthews Correlation Coefficient Carnac(20): 0.288 Murlet(seed): 0.079 Sensitivity Carnac(20): 0.093 Murlet(seed): 0.008 Positive Predictive Value Carnac(20): 0.892 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs CMfinder(seed) Matthews Correlation Coefficient Carnac(20): 0.288 CMfinder(seed): 0.080 Sensitivity Carnac(20): 0.093 CMfinder(seed): 0.008 Positive Predictive Value Carnac(20): 0.892 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs TurboFold(seed) Matthews Correlation Coefficient Carnac(20): 0.288 TurboFold(seed): 0.076 Sensitivity Carnac(20): 0.093 TurboFold(seed): 0.007 Positive Predictive Value Carnac(20): 0.892 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs PPfold(seed) Matthews Correlation Coefficient Carnac(20): 0.288 PPfold(seed): 0.069 Sensitivity Carnac(20): 0.093 PPfold(seed): 0.006 Positive Predictive Value Carnac(20): 0.892 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Carnac(seed) Matthews Correlation Coefficient Carnac(20): 0.288 Carnac(seed): 0.066 Sensitivity Carnac(20): 0.093 Carnac(seed): 0.005 Positive Predictive Value Carnac(20): 0.892 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs RNASampler(seed) Matthews Correlation Coefficient Carnac(20): 0.288 RNASampler(seed): 0.063 Sensitivity Carnac(20): 0.093 RNASampler(seed): 0.005 Positive Predictive Value Carnac(20): 0.892 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs NanoFolder Matthews Correlation Coefficient Carnac(20): 0.288 NanoFolder: 0.052 Sensitivity Carnac(20): 0.093 NanoFolder: 0.016 Positive Predictive Value Carnac(20): 0.892 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Mastr(seed) Matthews Correlation Coefficient Carnac(20): 0.288 Mastr(seed): 0.051 Sensitivity Carnac(20): 0.093 Mastr(seed): 0.003 Positive Predictive Value Carnac(20): 0.892 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Multilign(seed) Matthews Correlation Coefficient Carnac(20): 0.288 Multilign(seed): 0.043 Sensitivity Carnac(20): 0.093 Multilign(seed): 0.003 Positive Predictive Value Carnac(20): 0.892 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
RNASLOpt	1987 ContextFold vs RNASLOpt Matthews Correlation Coefficient ContextFold: 0.680 RNASLOpt: 0.281 Sensitivity ContextFold: 0.644 RNASLOpt: 0.158 Positive Predictive Value ContextFold: 0.718 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs RNASLOpt Matthews Correlation Coefficient IPknot: 0.548 RNASLOpt: 0.281 Sensitivity IPknot: 0.475 RNASLOpt: 0.158 Positive Predictive Value IPknot: 0.632 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs RNASLOpt Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RNASLOpt: 0.281 Sensitivity PETfold_pre2.0(seed): 0.343 RNASLOpt: 0.158 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs RNASLOpt Matthews Correlation Coefficient Contrafold: 0.508 RNASLOpt: 0.281 Sensitivity Contrafold: 0.481 RNASLOpt: 0.158 Positive Predictive Value Contrafold: 0.537 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs RNASLOpt Matthews Correlation Coefficient CentroidFold: 0.470 RNASLOpt: 0.281 Sensitivity CentroidFold: 0.369 RNASLOpt: 0.158 Positive Predictive Value CentroidFold: 0.600 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs RNASLOpt Matthews Correlation Coefficient Sfold: 0.469 RNASLOpt: 0.281 Sensitivity Sfold: 0.412 RNASLOpt: 0.158 Positive Predictive Value Sfold: 0.535 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs RNASLOpt Matthews Correlation Coefficient MaxExpect: 0.465 RNASLOpt: 0.281 Sensitivity MaxExpect: 0.443 RNASLOpt: 0.158 Positive Predictive Value MaxExpect: 0.488 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs RNASLOpt Matthews Correlation Coefficient ProbKnot: 0.460 RNASLOpt: 0.281 Sensitivity ProbKnot: 0.446 RNASLOpt: 0.158 Positive Predictive Value ProbKnot: 0.475 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs RNASLOpt Matthews Correlation Coefficient UNAFold: 0.445 RNASLOpt: 0.281 Sensitivity UNAFold: 0.445 RNASLOpt: 0.158 Positive Predictive Value UNAFold: 0.446 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs RNASLOpt Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RNASLOpt: 0.281 Sensitivity CentroidAlifold(seed): 0.213 RNASLOpt: 0.158 Positive Predictive Value CentroidAlifold(seed): 0.901 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs RNASLOpt Matthews Correlation Coefficient Fold: 0.437 RNASLOpt: 0.281 Sensitivity Fold: 0.432 RNASLOpt: 0.158 Positive Predictive Value Fold: 0.444 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs RNASLOpt Matthews Correlation Coefficient RNAfold: 0.429 RNASLOpt: 0.281 Sensitivity RNAfold: 0.422 RNASLOpt: 0.158 Positive Predictive Value RNAfold: 0.437 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs RNASLOpt Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RNASLOpt: 0.281 Sensitivity CentroidHomfold‑LAST: 0.216 RNASLOpt: 0.158 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs RNASLOpt Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RNASLOpt: 0.281 Sensitivity PETfold_pre2.0(20): 0.211 RNASLOpt: 0.158 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs RNASLOpt Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RNASLOpt: 0.281 Sensitivity CentroidAlifold(20): 0.190 RNASLOpt: 0.158 Positive Predictive Value CentroidAlifold(20): 0.891 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs RNASLOpt Matthews Correlation Coefficient PknotsRG: 0.386 RNASLOpt: 0.281 Sensitivity PknotsRG: 0.320 RNASLOpt: 0.158 Positive Predictive Value PknotsRG: 0.465 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs RNASLOpt Matthews Correlation Coefficient MXScarna(seed): 0.385 RNASLOpt: 0.281 Sensitivity MXScarna(seed): 0.196 RNASLOpt: 0.158 Positive Predictive Value MXScarna(seed): 0.753 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs RNASLOpt Matthews Correlation Coefficient RNAalifold(20): 0.381 RNASLOpt: 0.281 Sensitivity RNAalifold(20): 0.185 RNASLOpt: 0.158 Positive Predictive Value RNAalifold(20): 0.787 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs RNASLOpt Matthews Correlation Coefficient RNAalifold(seed): 0.375 RNASLOpt: 0.281 Sensitivity RNAalifold(seed): 0.169 RNASLOpt: 0.158 Positive Predictive Value RNAalifold(seed): 0.835 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs RNASLOpt Matthews Correlation Coefficient Afold: 0.358 RNASLOpt: 0.281 Sensitivity Afold: 0.295 RNASLOpt: 0.158 Positive Predictive Value Afold: 0.434 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs RNASLOpt Matthews Correlation Coefficient MXScarna(20): 0.359 RNASLOpt: 0.281 Sensitivity MXScarna(20): 0.181 RNASLOpt: 0.158 Positive Predictive Value MXScarna(20): 0.710 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs RNASLOpt Matthews Correlation Coefficient CRWrnafold: 0.346 RNASLOpt: 0.281 Sensitivity CRWrnafold: 0.275 RNASLOpt: 0.158 Positive Predictive Value CRWrnafold: 0.435 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs RNASLOpt Matthews Correlation Coefficient RNAsubopt: 0.336 RNASLOpt: 0.281 Sensitivity RNAsubopt: 0.217 RNASLOpt: 0.158 Positive Predictive Value RNAsubopt: 0.521 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs RNASLOpt Matthews Correlation Coefficient McQFold: 0.314 RNASLOpt: 0.281 Sensitivity McQFold: 0.205 RNASLOpt: 0.158 Positive Predictive Value McQFold: 0.480 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs RNASLOpt Matthews Correlation Coefficient TurboFold(20): 0.301 RNASLOpt: 0.281 Sensitivity TurboFold(20): 0.108 RNASLOpt: 0.158 Positive Predictive Value TurboFold(20): 0.837 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs RNASLOpt Matthews Correlation Coefficient PPfold(20): 0.298 RNASLOpt: 0.281 Sensitivity PPfold(20): 0.101 RNASLOpt: 0.158 Positive Predictive Value PPfold(20): 0.879 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs RNASLOpt Matthews Correlation Coefficient RNAshapes: 0.295 RNASLOpt: 0.281 Sensitivity RNAshapes: 0.180 RNASLOpt: 0.158 Positive Predictive Value RNAshapes: 0.484 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs RNASLOpt Matthews Correlation Coefficient Carnac(20): 0.288 RNASLOpt: 0.281 Sensitivity Carnac(20): 0.093 RNASLOpt: 0.158 Positive Predictive Value Carnac(20): 0.892 RNASLOpt: 0.502 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 6.06606238843e-08		+ RNASLOpt vs RSpredict(20) Matthews Correlation Coefficient RNASLOpt: 0.281 RSpredict(20): 0.270 Sensitivity RNASLOpt: 0.158 RSpredict(20): 0.124 Positive Predictive Value RNASLOpt: 0.502 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Multilign(20) Matthews Correlation Coefficient RNASLOpt: 0.281 Multilign(20): 0.251 Sensitivity RNASLOpt: 0.158 Multilign(20): 0.083 Positive Predictive Value RNASLOpt: 0.502 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs RNAwolf Matthews Correlation Coefficient RNASLOpt: 0.281 RNAwolf: 0.251 Sensitivity RNASLOpt: 0.158 RNAwolf: 0.191 Positive Predictive Value RNASLOpt: 0.502 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Murlet(20) Matthews Correlation Coefficient RNASLOpt: 0.281 Murlet(20): 0.230 Sensitivity RNASLOpt: 0.158 Murlet(20): 0.067 Positive Predictive Value RNASLOpt: 0.502 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Vsfold4 Matthews Correlation Coefficient RNASLOpt: 0.281 Vsfold4: 0.217 Sensitivity RNASLOpt: 0.158 Vsfold4: 0.125 Positive Predictive Value RNASLOpt: 0.502 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Vsfold5 Matthews Correlation Coefficient RNASLOpt: 0.281 Vsfold5: 0.211 Sensitivity RNASLOpt: 0.158 Vsfold5: 0.125 Positive Predictive Value RNASLOpt: 0.502 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs RSpredict(seed) Matthews Correlation Coefficient RNASLOpt: 0.281 RSpredict(seed): 0.212 Sensitivity RNASLOpt: 0.158 RSpredict(seed): 0.075 Positive Predictive Value RNASLOpt: 0.502 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs CMfinder(20) Matthews Correlation Coefficient RNASLOpt: 0.281 CMfinder(20): 0.210 Sensitivity RNASLOpt: 0.158 CMfinder(20): 0.055 Positive Predictive Value RNASLOpt: 0.502 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs HotKnots Matthews Correlation Coefficient RNASLOpt: 0.281 HotKnots: 0.179 Sensitivity RNASLOpt: 0.158 HotKnots: 0.051 Positive Predictive Value RNASLOpt: 0.502 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs RNASampler(20) Matthews Correlation Coefficient RNASLOpt: 0.281 RNASampler(20): 0.176 Sensitivity RNASLOpt: 0.158 RNASampler(20): 0.035 Positive Predictive Value RNASLOpt: 0.502 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Cylofold Matthews Correlation Coefficient RNASLOpt: 0.281 Cylofold: 0.155 Sensitivity RNASLOpt: 0.158 Cylofold: 0.040 Positive Predictive Value RNASLOpt: 0.502 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Pknots Matthews Correlation Coefficient RNASLOpt: 0.281 Pknots: 0.143 Sensitivity RNASLOpt: 0.158 Pknots: 0.033 Positive Predictive Value RNASLOpt: 0.502 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Mastr(20) Matthews Correlation Coefficient RNASLOpt: 0.281 Mastr(20): 0.134 Sensitivity RNASLOpt: 0.158 Mastr(20): 0.023 Positive Predictive Value RNASLOpt: 0.502 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Alterna Matthews Correlation Coefficient RNASLOpt: 0.281 Alterna: 0.129 Sensitivity RNASLOpt: 0.158 Alterna: 0.030 Positive Predictive Value RNASLOpt: 0.502 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs MCFold Matthews Correlation Coefficient RNASLOpt: 0.281 MCFold: 0.125 Sensitivity RNASLOpt: 0.158 MCFold: 0.036 Positive Predictive Value RNASLOpt: 0.502 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs RDfolder Matthews Correlation Coefficient RNASLOpt: 0.281 RDfolder: 0.122 Sensitivity RNASLOpt: 0.158 RDfolder: 0.025 Positive Predictive Value RNASLOpt: 0.502 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Murlet(seed) Matthews Correlation Coefficient RNASLOpt: 0.281 Murlet(seed): 0.079 Sensitivity RNASLOpt: 0.158 Murlet(seed): 0.008 Positive Predictive Value RNASLOpt: 0.502 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs CMfinder(seed) Matthews Correlation Coefficient RNASLOpt: 0.281 CMfinder(seed): 0.080 Sensitivity RNASLOpt: 0.158 CMfinder(seed): 0.008 Positive Predictive Value RNASLOpt: 0.502 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs TurboFold(seed) Matthews Correlation Coefficient RNASLOpt: 0.281 TurboFold(seed): 0.076 Sensitivity RNASLOpt: 0.158 TurboFold(seed): 0.007 Positive Predictive Value RNASLOpt: 0.502 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs PPfold(seed) Matthews Correlation Coefficient RNASLOpt: 0.281 PPfold(seed): 0.069 Sensitivity RNASLOpt: 0.158 PPfold(seed): 0.006 Positive Predictive Value RNASLOpt: 0.502 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Carnac(seed) Matthews Correlation Coefficient RNASLOpt: 0.281 Carnac(seed): 0.066 Sensitivity RNASLOpt: 0.158 Carnac(seed): 0.005 Positive Predictive Value RNASLOpt: 0.502 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs RNASampler(seed) Matthews Correlation Coefficient RNASLOpt: 0.281 RNASampler(seed): 0.063 Sensitivity RNASLOpt: 0.158 RNASampler(seed): 0.005 Positive Predictive Value RNASLOpt: 0.502 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs NanoFolder Matthews Correlation Coefficient RNASLOpt: 0.281 NanoFolder: 0.052 Sensitivity RNASLOpt: 0.158 NanoFolder: 0.016 Positive Predictive Value RNASLOpt: 0.502 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Mastr(seed) Matthews Correlation Coefficient RNASLOpt: 0.281 Mastr(seed): 0.051 Sensitivity RNASLOpt: 0.158 Mastr(seed): 0.003 Positive Predictive Value RNASLOpt: 0.502 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Multilign(seed) Matthews Correlation Coefficient RNASLOpt: 0.281 Multilign(seed): 0.043 Sensitivity RNASLOpt: 0.158 Multilign(seed): 0.003 Positive Predictive Value RNASLOpt: 0.502 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
RSpredict(20)	1987 ContextFold vs RSpredict(20) Matthews Correlation Coefficient ContextFold: 0.680 RSpredict(20): 0.270 Sensitivity ContextFold: 0.644 RSpredict(20): 0.124 Positive Predictive Value ContextFold: 0.718 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs RSpredict(20) Matthews Correlation Coefficient IPknot: 0.548 RSpredict(20): 0.270 Sensitivity IPknot: 0.475 RSpredict(20): 0.124 Positive Predictive Value IPknot: 0.632 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs RSpredict(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RSpredict(20): 0.270 Sensitivity PETfold_pre2.0(seed): 0.343 RSpredict(20): 0.124 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs RSpredict(20) Matthews Correlation Coefficient Contrafold: 0.508 RSpredict(20): 0.270 Sensitivity Contrafold: 0.481 RSpredict(20): 0.124 Positive Predictive Value Contrafold: 0.537 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs RSpredict(20) Matthews Correlation Coefficient CentroidFold: 0.470 RSpredict(20): 0.270 Sensitivity CentroidFold: 0.369 RSpredict(20): 0.124 Positive Predictive Value CentroidFold: 0.600 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs RSpredict(20) Matthews Correlation Coefficient Sfold: 0.469 RSpredict(20): 0.270 Sensitivity Sfold: 0.412 RSpredict(20): 0.124 Positive Predictive Value Sfold: 0.535 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs RSpredict(20) Matthews Correlation Coefficient MaxExpect: 0.465 RSpredict(20): 0.270 Sensitivity MaxExpect: 0.443 RSpredict(20): 0.124 Positive Predictive Value MaxExpect: 0.488 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs RSpredict(20) Matthews Correlation Coefficient ProbKnot: 0.460 RSpredict(20): 0.270 Sensitivity ProbKnot: 0.446 RSpredict(20): 0.124 Positive Predictive Value ProbKnot: 0.475 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs RSpredict(20) Matthews Correlation Coefficient UNAFold: 0.445 RSpredict(20): 0.270 Sensitivity UNAFold: 0.445 RSpredict(20): 0.124 Positive Predictive Value UNAFold: 0.446 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs RSpredict(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RSpredict(20): 0.270 Sensitivity CentroidAlifold(seed): 0.213 RSpredict(20): 0.124 Positive Predictive Value CentroidAlifold(seed): 0.901 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs RSpredict(20) Matthews Correlation Coefficient Fold: 0.437 RSpredict(20): 0.270 Sensitivity Fold: 0.432 RSpredict(20): 0.124 Positive Predictive Value Fold: 0.444 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs RSpredict(20) Matthews Correlation Coefficient RNAfold: 0.429 RSpredict(20): 0.270 Sensitivity RNAfold: 0.422 RSpredict(20): 0.124 Positive Predictive Value RNAfold: 0.437 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs RSpredict(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RSpredict(20): 0.270 Sensitivity CentroidHomfold‑LAST: 0.216 RSpredict(20): 0.124 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs RSpredict(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RSpredict(20): 0.270 Sensitivity PETfold_pre2.0(20): 0.211 RSpredict(20): 0.124 Positive Predictive Value PETfold_pre2.0(20): 0.807 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs RSpredict(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RSpredict(20): 0.270 Sensitivity CentroidAlifold(20): 0.190 RSpredict(20): 0.124 Positive Predictive Value CentroidAlifold(20): 0.891 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs RSpredict(20) Matthews Correlation Coefficient PknotsRG: 0.386 RSpredict(20): 0.270 Sensitivity PknotsRG: 0.320 RSpredict(20): 0.124 Positive Predictive Value PknotsRG: 0.465 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs RSpredict(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 RSpredict(20): 0.270 Sensitivity MXScarna(seed): 0.196 RSpredict(20): 0.124 Positive Predictive Value MXScarna(seed): 0.753 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs RSpredict(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 RSpredict(20): 0.270 Sensitivity RNAalifold(20): 0.185 RSpredict(20): 0.124 Positive Predictive Value RNAalifold(20): 0.787 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs RSpredict(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 RSpredict(20): 0.270 Sensitivity RNAalifold(seed): 0.169 RSpredict(20): 0.124 Positive Predictive Value RNAalifold(seed): 0.835 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs RSpredict(20) Matthews Correlation Coefficient Afold: 0.358 RSpredict(20): 0.270 Sensitivity Afold: 0.295 RSpredict(20): 0.124 Positive Predictive Value Afold: 0.434 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs RSpredict(20) Matthews Correlation Coefficient MXScarna(20): 0.359 RSpredict(20): 0.270 Sensitivity MXScarna(20): 0.181 RSpredict(20): 0.124 Positive Predictive Value MXScarna(20): 0.710 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs RSpredict(20) Matthews Correlation Coefficient CRWrnafold: 0.346 RSpredict(20): 0.270 Sensitivity CRWrnafold: 0.275 RSpredict(20): 0.124 Positive Predictive Value CRWrnafold: 0.435 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs RSpredict(20) Matthews Correlation Coefficient RNAsubopt: 0.336 RSpredict(20): 0.270 Sensitivity RNAsubopt: 0.217 RSpredict(20): 0.124 Positive Predictive Value RNAsubopt: 0.521 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs RSpredict(20) Matthews Correlation Coefficient McQFold: 0.314 RSpredict(20): 0.270 Sensitivity McQFold: 0.205 RSpredict(20): 0.124 Positive Predictive Value McQFold: 0.480 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs RSpredict(20) Matthews Correlation Coefficient TurboFold(20): 0.301 RSpredict(20): 0.270 Sensitivity TurboFold(20): 0.108 RSpredict(20): 0.124 Positive Predictive Value TurboFold(20): 0.837 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs RSpredict(20) Matthews Correlation Coefficient PPfold(20): 0.298 RSpredict(20): 0.270 Sensitivity PPfold(20): 0.101 RSpredict(20): 0.124 Positive Predictive Value PPfold(20): 0.879 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs RSpredict(20) Matthews Correlation Coefficient RNAshapes: 0.295 RSpredict(20): 0.270 Sensitivity RNAshapes: 0.180 RSpredict(20): 0.124 Positive Predictive Value RNAshapes: 0.484 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs RSpredict(20) Matthews Correlation Coefficient Carnac(20): 0.288 RSpredict(20): 0.270 Sensitivity Carnac(20): 0.093 RSpredict(20): 0.124 Positive Predictive Value Carnac(20): 0.892 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs RSpredict(20) Matthews Correlation Coefficient RNASLOpt: 0.281 RSpredict(20): 0.270 Sensitivity RNASLOpt: 0.158 RSpredict(20): 0.124 Positive Predictive Value RNASLOpt: 0.502 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ RSpredict(20) vs Multilign(20) Matthews Correlation Coefficient RSpredict(20): 0.270 Multilign(20): 0.251 Sensitivity RSpredict(20): 0.124 Multilign(20): 0.083 Positive Predictive Value RSpredict(20): 0.590 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs RNAwolf Matthews Correlation Coefficient RSpredict(20): 0.270 RNAwolf: 0.251 Sensitivity RSpredict(20): 0.124 RNAwolf: 0.191 Positive Predictive Value RSpredict(20): 0.590 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Murlet(20) Matthews Correlation Coefficient RSpredict(20): 0.270 Murlet(20): 0.230 Sensitivity RSpredict(20): 0.124 Murlet(20): 0.067 Positive Predictive Value RSpredict(20): 0.590 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Vsfold4 Matthews Correlation Coefficient RSpredict(20): 0.270 Vsfold4: 0.217 Sensitivity RSpredict(20): 0.124 Vsfold4: 0.125 Positive Predictive Value RSpredict(20): 0.590 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Vsfold5 Matthews Correlation Coefficient RSpredict(20): 0.270 Vsfold5: 0.211 Sensitivity RSpredict(20): 0.124 Vsfold5: 0.125 Positive Predictive Value RSpredict(20): 0.590 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs RSpredict(seed) Matthews Correlation Coefficient RSpredict(20): 0.270 RSpredict(seed): 0.212 Sensitivity RSpredict(20): 0.124 RSpredict(seed): 0.075 Positive Predictive Value RSpredict(20): 0.590 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs CMfinder(20) Matthews Correlation Coefficient RSpredict(20): 0.270 CMfinder(20): 0.210 Sensitivity RSpredict(20): 0.124 CMfinder(20): 0.055 Positive Predictive Value RSpredict(20): 0.590 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs HotKnots Matthews Correlation Coefficient RSpredict(20): 0.270 HotKnots: 0.179 Sensitivity RSpredict(20): 0.124 HotKnots: 0.051 Positive Predictive Value RSpredict(20): 0.590 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs RNASampler(20) Matthews Correlation Coefficient RSpredict(20): 0.270 RNASampler(20): 0.176 Sensitivity RSpredict(20): 0.124 RNASampler(20): 0.035 Positive Predictive Value RSpredict(20): 0.590 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Cylofold Matthews Correlation Coefficient RSpredict(20): 0.270 Cylofold: 0.155 Sensitivity RSpredict(20): 0.124 Cylofold: 0.040 Positive Predictive Value RSpredict(20): 0.590 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Pknots Matthews Correlation Coefficient RSpredict(20): 0.270 Pknots: 0.143 Sensitivity RSpredict(20): 0.124 Pknots: 0.033 Positive Predictive Value RSpredict(20): 0.590 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Mastr(20) Matthews Correlation Coefficient RSpredict(20): 0.270 Mastr(20): 0.134 Sensitivity RSpredict(20): 0.124 Mastr(20): 0.023 Positive Predictive Value RSpredict(20): 0.590 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Alterna Matthews Correlation Coefficient RSpredict(20): 0.270 Alterna: 0.129 Sensitivity RSpredict(20): 0.124 Alterna: 0.030 Positive Predictive Value RSpredict(20): 0.590 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs MCFold Matthews Correlation Coefficient RSpredict(20): 0.270 MCFold: 0.125 Sensitivity RSpredict(20): 0.124 MCFold: 0.036 Positive Predictive Value RSpredict(20): 0.590 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs RDfolder Matthews Correlation Coefficient RSpredict(20): 0.270 RDfolder: 0.122 Sensitivity RSpredict(20): 0.124 RDfolder: 0.025 Positive Predictive Value RSpredict(20): 0.590 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Murlet(seed) Matthews Correlation Coefficient RSpredict(20): 0.270 Murlet(seed): 0.079 Sensitivity RSpredict(20): 0.124 Murlet(seed): 0.008 Positive Predictive Value RSpredict(20): 0.590 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs CMfinder(seed) Matthews Correlation Coefficient RSpredict(20): 0.270 CMfinder(seed): 0.080 Sensitivity RSpredict(20): 0.124 CMfinder(seed): 0.008 Positive Predictive Value RSpredict(20): 0.590 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs TurboFold(seed) Matthews Correlation Coefficient RSpredict(20): 0.270 TurboFold(seed): 0.076 Sensitivity RSpredict(20): 0.124 TurboFold(seed): 0.007 Positive Predictive Value RSpredict(20): 0.590 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs PPfold(seed) Matthews Correlation Coefficient RSpredict(20): 0.270 PPfold(seed): 0.069 Sensitivity RSpredict(20): 0.124 PPfold(seed): 0.006 Positive Predictive Value RSpredict(20): 0.590 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Carnac(seed) Matthews Correlation Coefficient RSpredict(20): 0.270 Carnac(seed): 0.066 Sensitivity RSpredict(20): 0.124 Carnac(seed): 0.005 Positive Predictive Value RSpredict(20): 0.590 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs RNASampler(seed) Matthews Correlation Coefficient RSpredict(20): 0.270 RNASampler(seed): 0.063 Sensitivity RSpredict(20): 0.124 RNASampler(seed): 0.005 Positive Predictive Value RSpredict(20): 0.590 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs NanoFolder Matthews Correlation Coefficient RSpredict(20): 0.270 NanoFolder: 0.052 Sensitivity RSpredict(20): 0.124 NanoFolder: 0.016 Positive Predictive Value RSpredict(20): 0.590 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Mastr(seed) Matthews Correlation Coefficient RSpredict(20): 0.270 Mastr(seed): 0.051 Sensitivity RSpredict(20): 0.124 Mastr(seed): 0.003 Positive Predictive Value RSpredict(20): 0.590 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Multilign(seed) Matthews Correlation Coefficient RSpredict(20): 0.270 Multilign(seed): 0.043 Sensitivity RSpredict(20): 0.124 Multilign(seed): 0.003 Positive Predictive Value RSpredict(20): 0.590 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
Multilign(20)	1987 ContextFold vs Multilign(20) Matthews Correlation Coefficient ContextFold: 0.680 Multilign(20): 0.251 Sensitivity ContextFold: 0.644 Multilign(20): 0.083 Positive Predictive Value ContextFold: 0.718 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs Multilign(20) Matthews Correlation Coefficient IPknot: 0.548 Multilign(20): 0.251 Sensitivity IPknot: 0.475 Multilign(20): 0.083 Positive Predictive Value IPknot: 0.632 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs Multilign(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Multilign(20): 0.251 Sensitivity PETfold_pre2.0(seed): 0.343 Multilign(20): 0.083 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs Multilign(20) Matthews Correlation Coefficient Contrafold: 0.508 Multilign(20): 0.251 Sensitivity Contrafold: 0.481 Multilign(20): 0.083 Positive Predictive Value Contrafold: 0.537 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs Multilign(20) Matthews Correlation Coefficient CentroidFold: 0.470 Multilign(20): 0.251 Sensitivity CentroidFold: 0.369 Multilign(20): 0.083 Positive Predictive Value CentroidFold: 0.600 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs Multilign(20) Matthews Correlation Coefficient Sfold: 0.469 Multilign(20): 0.251 Sensitivity Sfold: 0.412 Multilign(20): 0.083 Positive Predictive Value Sfold: 0.535 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs Multilign(20) Matthews Correlation Coefficient MaxExpect: 0.465 Multilign(20): 0.251 Sensitivity MaxExpect: 0.443 Multilign(20): 0.083 Positive Predictive Value MaxExpect: 0.488 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs Multilign(20) Matthews Correlation Coefficient ProbKnot: 0.460 Multilign(20): 0.251 Sensitivity ProbKnot: 0.446 Multilign(20): 0.083 Positive Predictive Value ProbKnot: 0.475 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs Multilign(20) Matthews Correlation Coefficient UNAFold: 0.445 Multilign(20): 0.251 Sensitivity UNAFold: 0.445 Multilign(20): 0.083 Positive Predictive Value UNAFold: 0.446 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs Multilign(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Multilign(20): 0.251 Sensitivity CentroidAlifold(seed): 0.213 Multilign(20): 0.083 Positive Predictive Value CentroidAlifold(seed): 0.901 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs Multilign(20) Matthews Correlation Coefficient Fold: 0.437 Multilign(20): 0.251 Sensitivity Fold: 0.432 Multilign(20): 0.083 Positive Predictive Value Fold: 0.444 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs Multilign(20) Matthews Correlation Coefficient RNAfold: 0.429 Multilign(20): 0.251 Sensitivity RNAfold: 0.422 Multilign(20): 0.083 Positive Predictive Value RNAfold: 0.437 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs Multilign(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Multilign(20): 0.251 Sensitivity CentroidHomfold‑LAST: 0.216 Multilign(20): 0.083 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs Multilign(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Multilign(20): 0.251 Sensitivity PETfold_pre2.0(20): 0.211 Multilign(20): 0.083 Positive Predictive Value PETfold_pre2.0(20): 0.807 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs Multilign(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Multilign(20): 0.251 Sensitivity CentroidAlifold(20): 0.190 Multilign(20): 0.083 Positive Predictive Value CentroidAlifold(20): 0.891 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs Multilign(20) Matthews Correlation Coefficient PknotsRG: 0.386 Multilign(20): 0.251 Sensitivity PknotsRG: 0.320 Multilign(20): 0.083 Positive Predictive Value PknotsRG: 0.465 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs Multilign(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 Multilign(20): 0.251 Sensitivity MXScarna(seed): 0.196 Multilign(20): 0.083 Positive Predictive Value MXScarna(seed): 0.753 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs Multilign(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 Multilign(20): 0.251 Sensitivity RNAalifold(20): 0.185 Multilign(20): 0.083 Positive Predictive Value RNAalifold(20): 0.787 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs Multilign(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 Multilign(20): 0.251 Sensitivity RNAalifold(seed): 0.169 Multilign(20): 0.083 Positive Predictive Value RNAalifold(seed): 0.835 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs Multilign(20) Matthews Correlation Coefficient Afold: 0.358 Multilign(20): 0.251 Sensitivity Afold: 0.295 Multilign(20): 0.083 Positive Predictive Value Afold: 0.434 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs Multilign(20) Matthews Correlation Coefficient MXScarna(20): 0.359 Multilign(20): 0.251 Sensitivity MXScarna(20): 0.181 Multilign(20): 0.083 Positive Predictive Value MXScarna(20): 0.710 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs Multilign(20) Matthews Correlation Coefficient CRWrnafold: 0.346 Multilign(20): 0.251 Sensitivity CRWrnafold: 0.275 Multilign(20): 0.083 Positive Predictive Value CRWrnafold: 0.435 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs Multilign(20) Matthews Correlation Coefficient RNAsubopt: 0.336 Multilign(20): 0.251 Sensitivity RNAsubopt: 0.217 Multilign(20): 0.083 Positive Predictive Value RNAsubopt: 0.521 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs Multilign(20) Matthews Correlation Coefficient McQFold: 0.314 Multilign(20): 0.251 Sensitivity McQFold: 0.205 Multilign(20): 0.083 Positive Predictive Value McQFold: 0.480 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs Multilign(20) Matthews Correlation Coefficient TurboFold(20): 0.301 Multilign(20): 0.251 Sensitivity TurboFold(20): 0.108 Multilign(20): 0.083 Positive Predictive Value TurboFold(20): 0.837 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs Multilign(20) Matthews Correlation Coefficient PPfold(20): 0.298 Multilign(20): 0.251 Sensitivity PPfold(20): 0.101 Multilign(20): 0.083 Positive Predictive Value PPfold(20): 0.879 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs Multilign(20) Matthews Correlation Coefficient RNAshapes: 0.295 Multilign(20): 0.251 Sensitivity RNAshapes: 0.180 Multilign(20): 0.083 Positive Predictive Value RNAshapes: 0.484 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs Multilign(20) Matthews Correlation Coefficient Carnac(20): 0.288 Multilign(20): 0.251 Sensitivity Carnac(20): 0.093 Multilign(20): 0.083 Positive Predictive Value Carnac(20): 0.892 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs Multilign(20) Matthews Correlation Coefficient RNASLOpt: 0.281 Multilign(20): 0.251 Sensitivity RNASLOpt: 0.158 Multilign(20): 0.083 Positive Predictive Value RNASLOpt: 0.502 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs Multilign(20) Matthews Correlation Coefficient RSpredict(20): 0.270 Multilign(20): 0.251 Sensitivity RSpredict(20): 0.124 Multilign(20): 0.083 Positive Predictive Value RSpredict(20): 0.590 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		= Multilign(20) vs RNAwolf Matthews Correlation Coefficient Multilign(20): 0.251 RNAwolf: 0.251 Sensitivity Multilign(20): 0.083 RNAwolf: 0.191 Positive Predictive Value Multilign(20): 0.762 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.412262207143	+ Multilign(20) vs Murlet(20) Matthews Correlation Coefficient Multilign(20): 0.251 Murlet(20): 0.230 Sensitivity Multilign(20): 0.083 Murlet(20): 0.067 Positive Predictive Value Multilign(20): 0.762 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Vsfold4 Matthews Correlation Coefficient Multilign(20): 0.251 Vsfold4: 0.217 Sensitivity Multilign(20): 0.083 Vsfold4: 0.125 Positive Predictive Value Multilign(20): 0.762 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Vsfold5 Matthews Correlation Coefficient Multilign(20): 0.251 Vsfold5: 0.211 Sensitivity Multilign(20): 0.083 Vsfold5: 0.125 Positive Predictive Value Multilign(20): 0.762 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs RSpredict(seed) Matthews Correlation Coefficient Multilign(20): 0.251 RSpredict(seed): 0.212 Sensitivity Multilign(20): 0.083 RSpredict(seed): 0.075 Positive Predictive Value Multilign(20): 0.762 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs CMfinder(20) Matthews Correlation Coefficient Multilign(20): 0.251 CMfinder(20): 0.210 Sensitivity Multilign(20): 0.083 CMfinder(20): 0.055 Positive Predictive Value Multilign(20): 0.762 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs HotKnots Matthews Correlation Coefficient Multilign(20): 0.251 HotKnots: 0.179 Sensitivity Multilign(20): 0.083 HotKnots: 0.051 Positive Predictive Value Multilign(20): 0.762 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs RNASampler(20) Matthews Correlation Coefficient Multilign(20): 0.251 RNASampler(20): 0.176 Sensitivity Multilign(20): 0.083 RNASampler(20): 0.035 Positive Predictive Value Multilign(20): 0.762 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Cylofold Matthews Correlation Coefficient Multilign(20): 0.251 Cylofold: 0.155 Sensitivity Multilign(20): 0.083 Cylofold: 0.040 Positive Predictive Value Multilign(20): 0.762 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Pknots Matthews Correlation Coefficient Multilign(20): 0.251 Pknots: 0.143 Sensitivity Multilign(20): 0.083 Pknots: 0.033 Positive Predictive Value Multilign(20): 0.762 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Mastr(20) Matthews Correlation Coefficient Multilign(20): 0.251 Mastr(20): 0.134 Sensitivity Multilign(20): 0.083 Mastr(20): 0.023 Positive Predictive Value Multilign(20): 0.762 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Alterna Matthews Correlation Coefficient Multilign(20): 0.251 Alterna: 0.129 Sensitivity Multilign(20): 0.083 Alterna: 0.030 Positive Predictive Value Multilign(20): 0.762 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs MCFold Matthews Correlation Coefficient Multilign(20): 0.251 MCFold: 0.125 Sensitivity Multilign(20): 0.083 MCFold: 0.036 Positive Predictive Value Multilign(20): 0.762 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs RDfolder Matthews Correlation Coefficient Multilign(20): 0.251 RDfolder: 0.122 Sensitivity Multilign(20): 0.083 RDfolder: 0.025 Positive Predictive Value Multilign(20): 0.762 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Murlet(seed) Matthews Correlation Coefficient Multilign(20): 0.251 Murlet(seed): 0.079 Sensitivity Multilign(20): 0.083 Murlet(seed): 0.008 Positive Predictive Value Multilign(20): 0.762 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs CMfinder(seed) Matthews Correlation Coefficient Multilign(20): 0.251 CMfinder(seed): 0.080 Sensitivity Multilign(20): 0.083 CMfinder(seed): 0.008 Positive Predictive Value Multilign(20): 0.762 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs TurboFold(seed) Matthews Correlation Coefficient Multilign(20): 0.251 TurboFold(seed): 0.076 Sensitivity Multilign(20): 0.083 TurboFold(seed): 0.007 Positive Predictive Value Multilign(20): 0.762 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs PPfold(seed) Matthews Correlation Coefficient Multilign(20): 0.251 PPfold(seed): 0.069 Sensitivity Multilign(20): 0.083 PPfold(seed): 0.006 Positive Predictive Value Multilign(20): 0.762 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Carnac(seed) Matthews Correlation Coefficient Multilign(20): 0.251 Carnac(seed): 0.066 Sensitivity Multilign(20): 0.083 Carnac(seed): 0.005 Positive Predictive Value Multilign(20): 0.762 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs RNASampler(seed) Matthews Correlation Coefficient Multilign(20): 0.251 RNASampler(seed): 0.063 Sensitivity Multilign(20): 0.083 RNASampler(seed): 0.005 Positive Predictive Value Multilign(20): 0.762 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs NanoFolder Matthews Correlation Coefficient Multilign(20): 0.251 NanoFolder: 0.052 Sensitivity Multilign(20): 0.083 NanoFolder: 0.016 Positive Predictive Value Multilign(20): 0.762 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Mastr(seed) Matthews Correlation Coefficient Multilign(20): 0.251 Mastr(seed): 0.051 Sensitivity Multilign(20): 0.083 Mastr(seed): 0.003 Positive Predictive Value Multilign(20): 0.762 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Multilign(seed) Matthews Correlation Coefficient Multilign(20): 0.251 Multilign(seed): 0.043 Sensitivity Multilign(20): 0.083 Multilign(seed): 0.003 Positive Predictive Value Multilign(20): 0.762 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
RNAwolf	1987 ContextFold vs RNAwolf Matthews Correlation Coefficient ContextFold: 0.680 RNAwolf: 0.251 Sensitivity ContextFold: 0.644 RNAwolf: 0.191 Positive Predictive Value ContextFold: 0.718 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs RNAwolf Matthews Correlation Coefficient IPknot: 0.548 RNAwolf: 0.251 Sensitivity IPknot: 0.475 RNAwolf: 0.191 Positive Predictive Value IPknot: 0.632 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs RNAwolf Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RNAwolf: 0.251 Sensitivity PETfold_pre2.0(seed): 0.343 RNAwolf: 0.191 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs RNAwolf Matthews Correlation Coefficient Contrafold: 0.508 RNAwolf: 0.251 Sensitivity Contrafold: 0.481 RNAwolf: 0.191 Positive Predictive Value Contrafold: 0.537 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs RNAwolf Matthews Correlation Coefficient CentroidFold: 0.470 RNAwolf: 0.251 Sensitivity CentroidFold: 0.369 RNAwolf: 0.191 Positive Predictive Value CentroidFold: 0.600 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs RNAwolf Matthews Correlation Coefficient Sfold: 0.469 RNAwolf: 0.251 Sensitivity Sfold: 0.412 RNAwolf: 0.191 Positive Predictive Value Sfold: 0.535 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs RNAwolf Matthews Correlation Coefficient MaxExpect: 0.465 RNAwolf: 0.251 Sensitivity MaxExpect: 0.443 RNAwolf: 0.191 Positive Predictive Value MaxExpect: 0.488 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs RNAwolf Matthews Correlation Coefficient ProbKnot: 0.460 RNAwolf: 0.251 Sensitivity ProbKnot: 0.446 RNAwolf: 0.191 Positive Predictive Value ProbKnot: 0.475 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs RNAwolf Matthews Correlation Coefficient UNAFold: 0.445 RNAwolf: 0.251 Sensitivity UNAFold: 0.445 RNAwolf: 0.191 Positive Predictive Value UNAFold: 0.446 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs RNAwolf Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RNAwolf: 0.251 Sensitivity CentroidAlifold(seed): 0.213 RNAwolf: 0.191 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs RNAwolf Matthews Correlation Coefficient Fold: 0.437 RNAwolf: 0.251 Sensitivity Fold: 0.432 RNAwolf: 0.191 Positive Predictive Value Fold: 0.444 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs RNAwolf Matthews Correlation Coefficient RNAfold: 0.429 RNAwolf: 0.251 Sensitivity RNAfold: 0.422 RNAwolf: 0.191 Positive Predictive Value RNAfold: 0.437 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs RNAwolf Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RNAwolf: 0.251 Sensitivity CentroidHomfold‑LAST: 0.216 RNAwolf: 0.191 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs RNAwolf Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RNAwolf: 0.251 Sensitivity PETfold_pre2.0(20): 0.211 RNAwolf: 0.191 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs RNAwolf Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RNAwolf: 0.251 Sensitivity CentroidAlifold(20): 0.190 RNAwolf: 0.191 Positive Predictive Value CentroidAlifold(20): 0.891 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs RNAwolf Matthews Correlation Coefficient PknotsRG: 0.386 RNAwolf: 0.251 Sensitivity PknotsRG: 0.320 RNAwolf: 0.191 Positive Predictive Value PknotsRG: 0.465 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs RNAwolf Matthews Correlation Coefficient MXScarna(seed): 0.385 RNAwolf: 0.251 Sensitivity MXScarna(seed): 0.196 RNAwolf: 0.191 Positive Predictive Value MXScarna(seed): 0.753 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs RNAwolf Matthews Correlation Coefficient RNAalifold(20): 0.381 RNAwolf: 0.251 Sensitivity RNAalifold(20): 0.185 RNAwolf: 0.191 Positive Predictive Value RNAalifold(20): 0.787 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs RNAwolf Matthews Correlation Coefficient RNAalifold(seed): 0.375 RNAwolf: 0.251 Sensitivity RNAalifold(seed): 0.169 RNAwolf: 0.191 Positive Predictive Value RNAalifold(seed): 0.835 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs RNAwolf Matthews Correlation Coefficient Afold: 0.358 RNAwolf: 0.251 Sensitivity Afold: 0.295 RNAwolf: 0.191 Positive Predictive Value Afold: 0.434 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs RNAwolf Matthews Correlation Coefficient MXScarna(20): 0.359 RNAwolf: 0.251 Sensitivity MXScarna(20): 0.181 RNAwolf: 0.191 Positive Predictive Value MXScarna(20): 0.710 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs RNAwolf Matthews Correlation Coefficient CRWrnafold: 0.346 RNAwolf: 0.251 Sensitivity CRWrnafold: 0.275 RNAwolf: 0.191 Positive Predictive Value CRWrnafold: 0.435 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs RNAwolf Matthews Correlation Coefficient RNAsubopt: 0.336 RNAwolf: 0.251 Sensitivity RNAsubopt: 0.217 RNAwolf: 0.191 Positive Predictive Value RNAsubopt: 0.521 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs RNAwolf Matthews Correlation Coefficient McQFold: 0.314 RNAwolf: 0.251 Sensitivity McQFold: 0.205 RNAwolf: 0.191 Positive Predictive Value McQFold: 0.480 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs RNAwolf Matthews Correlation Coefficient TurboFold(20): 0.301 RNAwolf: 0.251 Sensitivity TurboFold(20): 0.108 RNAwolf: 0.191 Positive Predictive Value TurboFold(20): 0.837 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs RNAwolf Matthews Correlation Coefficient PPfold(20): 0.298 RNAwolf: 0.251 Sensitivity PPfold(20): 0.101 RNAwolf: 0.191 Positive Predictive Value PPfold(20): 0.879 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs RNAwolf Matthews Correlation Coefficient RNAshapes: 0.295 RNAwolf: 0.251 Sensitivity RNAshapes: 0.180 RNAwolf: 0.191 Positive Predictive Value RNAshapes: 0.484 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs RNAwolf Matthews Correlation Coefficient Carnac(20): 0.288 RNAwolf: 0.251 Sensitivity Carnac(20): 0.093 RNAwolf: 0.191 Positive Predictive Value Carnac(20): 0.892 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs RNAwolf Matthews Correlation Coefficient RNASLOpt: 0.281 RNAwolf: 0.251 Sensitivity RNASLOpt: 0.158 RNAwolf: 0.191 Positive Predictive Value RNASLOpt: 0.502 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs RNAwolf Matthews Correlation Coefficient RSpredict(20): 0.270 RNAwolf: 0.251 Sensitivity RSpredict(20): 0.124 RNAwolf: 0.191 Positive Predictive Value RSpredict(20): 0.590 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs RNAwolf Matthews Correlation Coefficient Multilign(20): 0.251 RNAwolf: 0.251 Sensitivity Multilign(20): 0.083 RNAwolf: 0.191 Positive Predictive Value Multilign(20): 0.762 RNAwolf: 0.330 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.412262207143		+ RNAwolf vs Murlet(20) Matthews Correlation Coefficient RNAwolf: 0.251 Murlet(20): 0.230 Sensitivity RNAwolf: 0.191 Murlet(20): 0.067 Positive Predictive Value RNAwolf: 0.330 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Vsfold4 Matthews Correlation Coefficient RNAwolf: 0.251 Vsfold4: 0.217 Sensitivity RNAwolf: 0.191 Vsfold4: 0.125 Positive Predictive Value RNAwolf: 0.330 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Vsfold5 Matthews Correlation Coefficient RNAwolf: 0.251 Vsfold5: 0.211 Sensitivity RNAwolf: 0.191 Vsfold5: 0.125 Positive Predictive Value RNAwolf: 0.330 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs RSpredict(seed) Matthews Correlation Coefficient RNAwolf: 0.251 RSpredict(seed): 0.212 Sensitivity RNAwolf: 0.191 RSpredict(seed): 0.075 Positive Predictive Value RNAwolf: 0.330 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs CMfinder(20) Matthews Correlation Coefficient RNAwolf: 0.251 CMfinder(20): 0.210 Sensitivity RNAwolf: 0.191 CMfinder(20): 0.055 Positive Predictive Value RNAwolf: 0.330 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs HotKnots Matthews Correlation Coefficient RNAwolf: 0.251 HotKnots: 0.179 Sensitivity RNAwolf: 0.191 HotKnots: 0.051 Positive Predictive Value RNAwolf: 0.330 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs RNASampler(20) Matthews Correlation Coefficient RNAwolf: 0.251 RNASampler(20): 0.176 Sensitivity RNAwolf: 0.191 RNASampler(20): 0.035 Positive Predictive Value RNAwolf: 0.330 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Cylofold Matthews Correlation Coefficient RNAwolf: 0.251 Cylofold: 0.155 Sensitivity RNAwolf: 0.191 Cylofold: 0.040 Positive Predictive Value RNAwolf: 0.330 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Pknots Matthews Correlation Coefficient RNAwolf: 0.251 Pknots: 0.143 Sensitivity RNAwolf: 0.191 Pknots: 0.033 Positive Predictive Value RNAwolf: 0.330 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Mastr(20) Matthews Correlation Coefficient RNAwolf: 0.251 Mastr(20): 0.134 Sensitivity RNAwolf: 0.191 Mastr(20): 0.023 Positive Predictive Value RNAwolf: 0.330 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Alterna Matthews Correlation Coefficient RNAwolf: 0.251 Alterna: 0.129 Sensitivity RNAwolf: 0.191 Alterna: 0.030 Positive Predictive Value RNAwolf: 0.330 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs MCFold Matthews Correlation Coefficient RNAwolf: 0.251 MCFold: 0.125 Sensitivity RNAwolf: 0.191 MCFold: 0.036 Positive Predictive Value RNAwolf: 0.330 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs RDfolder Matthews Correlation Coefficient RNAwolf: 0.251 RDfolder: 0.122 Sensitivity RNAwolf: 0.191 RDfolder: 0.025 Positive Predictive Value RNAwolf: 0.330 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Murlet(seed) Matthews Correlation Coefficient RNAwolf: 0.251 Murlet(seed): 0.079 Sensitivity RNAwolf: 0.191 Murlet(seed): 0.008 Positive Predictive Value RNAwolf: 0.330 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs CMfinder(seed) Matthews Correlation Coefficient RNAwolf: 0.251 CMfinder(seed): 0.080 Sensitivity RNAwolf: 0.191 CMfinder(seed): 0.008 Positive Predictive Value RNAwolf: 0.330 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs TurboFold(seed) Matthews Correlation Coefficient RNAwolf: 0.251 TurboFold(seed): 0.076 Sensitivity RNAwolf: 0.191 TurboFold(seed): 0.007 Positive Predictive Value RNAwolf: 0.330 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs PPfold(seed) Matthews Correlation Coefficient RNAwolf: 0.251 PPfold(seed): 0.069 Sensitivity RNAwolf: 0.191 PPfold(seed): 0.006 Positive Predictive Value RNAwolf: 0.330 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Carnac(seed) Matthews Correlation Coefficient RNAwolf: 0.251 Carnac(seed): 0.066 Sensitivity RNAwolf: 0.191 Carnac(seed): 0.005 Positive Predictive Value RNAwolf: 0.330 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs RNASampler(seed) Matthews Correlation Coefficient RNAwolf: 0.251 RNASampler(seed): 0.063 Sensitivity RNAwolf: 0.191 RNASampler(seed): 0.005 Positive Predictive Value RNAwolf: 0.330 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs NanoFolder Matthews Correlation Coefficient RNAwolf: 0.251 NanoFolder: 0.052 Sensitivity RNAwolf: 0.191 NanoFolder: 0.016 Positive Predictive Value RNAwolf: 0.330 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Mastr(seed) Matthews Correlation Coefficient RNAwolf: 0.251 Mastr(seed): 0.051 Sensitivity RNAwolf: 0.191 Mastr(seed): 0.003 Positive Predictive Value RNAwolf: 0.330 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Multilign(seed) Matthews Correlation Coefficient RNAwolf: 0.251 Multilign(seed): 0.043 Sensitivity RNAwolf: 0.191 Multilign(seed): 0.003 Positive Predictive Value RNAwolf: 0.330 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
Murlet(20)	1987 ContextFold vs Murlet(20) Matthews Correlation Coefficient ContextFold: 0.680 Murlet(20): 0.230 Sensitivity ContextFold: 0.644 Murlet(20): 0.067 Positive Predictive Value ContextFold: 0.718 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs Murlet(20) Matthews Correlation Coefficient IPknot: 0.548 Murlet(20): 0.230 Sensitivity IPknot: 0.475 Murlet(20): 0.067 Positive Predictive Value IPknot: 0.632 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs Murlet(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Murlet(20): 0.230 Sensitivity PETfold_pre2.0(seed): 0.343 Murlet(20): 0.067 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs Murlet(20) Matthews Correlation Coefficient Contrafold: 0.508 Murlet(20): 0.230 Sensitivity Contrafold: 0.481 Murlet(20): 0.067 Positive Predictive Value Contrafold: 0.537 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs Murlet(20) Matthews Correlation Coefficient CentroidFold: 0.470 Murlet(20): 0.230 Sensitivity CentroidFold: 0.369 Murlet(20): 0.067 Positive Predictive Value CentroidFold: 0.600 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs Murlet(20) Matthews Correlation Coefficient Sfold: 0.469 Murlet(20): 0.230 Sensitivity Sfold: 0.412 Murlet(20): 0.067 Positive Predictive Value Sfold: 0.535 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs Murlet(20) Matthews Correlation Coefficient MaxExpect: 0.465 Murlet(20): 0.230 Sensitivity MaxExpect: 0.443 Murlet(20): 0.067 Positive Predictive Value MaxExpect: 0.488 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs Murlet(20) Matthews Correlation Coefficient ProbKnot: 0.460 Murlet(20): 0.230 Sensitivity ProbKnot: 0.446 Murlet(20): 0.067 Positive Predictive Value ProbKnot: 0.475 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs Murlet(20) Matthews Correlation Coefficient UNAFold: 0.445 Murlet(20): 0.230 Sensitivity UNAFold: 0.445 Murlet(20): 0.067 Positive Predictive Value UNAFold: 0.446 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs Murlet(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Murlet(20): 0.230 Sensitivity CentroidAlifold(seed): 0.213 Murlet(20): 0.067 Positive Predictive Value CentroidAlifold(seed): 0.901 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs Murlet(20) Matthews Correlation Coefficient Fold: 0.437 Murlet(20): 0.230 Sensitivity Fold: 0.432 Murlet(20): 0.067 Positive Predictive Value Fold: 0.444 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs Murlet(20) Matthews Correlation Coefficient RNAfold: 0.429 Murlet(20): 0.230 Sensitivity RNAfold: 0.422 Murlet(20): 0.067 Positive Predictive Value RNAfold: 0.437 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs Murlet(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Murlet(20): 0.230 Sensitivity CentroidHomfold‑LAST: 0.216 Murlet(20): 0.067 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs Murlet(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Murlet(20): 0.230 Sensitivity PETfold_pre2.0(20): 0.211 Murlet(20): 0.067 Positive Predictive Value PETfold_pre2.0(20): 0.807 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs Murlet(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Murlet(20): 0.230 Sensitivity CentroidAlifold(20): 0.190 Murlet(20): 0.067 Positive Predictive Value CentroidAlifold(20): 0.891 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs Murlet(20) Matthews Correlation Coefficient PknotsRG: 0.386 Murlet(20): 0.230 Sensitivity PknotsRG: 0.320 Murlet(20): 0.067 Positive Predictive Value PknotsRG: 0.465 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs Murlet(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 Murlet(20): 0.230 Sensitivity MXScarna(seed): 0.196 Murlet(20): 0.067 Positive Predictive Value MXScarna(seed): 0.753 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs Murlet(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 Murlet(20): 0.230 Sensitivity RNAalifold(20): 0.185 Murlet(20): 0.067 Positive Predictive Value RNAalifold(20): 0.787 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs Murlet(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 Murlet(20): 0.230 Sensitivity RNAalifold(seed): 0.169 Murlet(20): 0.067 Positive Predictive Value RNAalifold(seed): 0.835 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs Murlet(20) Matthews Correlation Coefficient Afold: 0.358 Murlet(20): 0.230 Sensitivity Afold: 0.295 Murlet(20): 0.067 Positive Predictive Value Afold: 0.434 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs Murlet(20) Matthews Correlation Coefficient MXScarna(20): 0.359 Murlet(20): 0.230 Sensitivity MXScarna(20): 0.181 Murlet(20): 0.067 Positive Predictive Value MXScarna(20): 0.710 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs Murlet(20) Matthews Correlation Coefficient CRWrnafold: 0.346 Murlet(20): 0.230 Sensitivity CRWrnafold: 0.275 Murlet(20): 0.067 Positive Predictive Value CRWrnafold: 0.435 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs Murlet(20) Matthews Correlation Coefficient RNAsubopt: 0.336 Murlet(20): 0.230 Sensitivity RNAsubopt: 0.217 Murlet(20): 0.067 Positive Predictive Value RNAsubopt: 0.521 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs Murlet(20) Matthews Correlation Coefficient McQFold: 0.314 Murlet(20): 0.230 Sensitivity McQFold: 0.205 Murlet(20): 0.067 Positive Predictive Value McQFold: 0.480 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs Murlet(20) Matthews Correlation Coefficient TurboFold(20): 0.301 Murlet(20): 0.230 Sensitivity TurboFold(20): 0.108 Murlet(20): 0.067 Positive Predictive Value TurboFold(20): 0.837 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs Murlet(20) Matthews Correlation Coefficient PPfold(20): 0.298 Murlet(20): 0.230 Sensitivity PPfold(20): 0.101 Murlet(20): 0.067 Positive Predictive Value PPfold(20): 0.879 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs Murlet(20) Matthews Correlation Coefficient RNAshapes: 0.295 Murlet(20): 0.230 Sensitivity RNAshapes: 0.180 Murlet(20): 0.067 Positive Predictive Value RNAshapes: 0.484 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs Murlet(20) Matthews Correlation Coefficient Carnac(20): 0.288 Murlet(20): 0.230 Sensitivity Carnac(20): 0.093 Murlet(20): 0.067 Positive Predictive Value Carnac(20): 0.892 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs Murlet(20) Matthews Correlation Coefficient RNASLOpt: 0.281 Murlet(20): 0.230 Sensitivity RNASLOpt: 0.158 Murlet(20): 0.067 Positive Predictive Value RNASLOpt: 0.502 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs Murlet(20) Matthews Correlation Coefficient RSpredict(20): 0.270 Murlet(20): 0.230 Sensitivity RSpredict(20): 0.124 Murlet(20): 0.067 Positive Predictive Value RSpredict(20): 0.590 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs Murlet(20) Matthews Correlation Coefficient Multilign(20): 0.251 Murlet(20): 0.230 Sensitivity Multilign(20): 0.083 Murlet(20): 0.067 Positive Predictive Value Multilign(20): 0.762 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs Murlet(20) Matthews Correlation Coefficient RNAwolf: 0.251 Murlet(20): 0.230 Sensitivity RNAwolf: 0.191 Murlet(20): 0.067 Positive Predictive Value RNAwolf: 0.330 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ Murlet(20) vs Vsfold4 Matthews Correlation Coefficient Murlet(20): 0.230 Vsfold4: 0.217 Sensitivity Murlet(20): 0.067 Vsfold4: 0.125 Positive Predictive Value Murlet(20): 0.787 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Vsfold5 Matthews Correlation Coefficient Murlet(20): 0.230 Vsfold5: 0.211 Sensitivity Murlet(20): 0.067 Vsfold5: 0.125 Positive Predictive Value Murlet(20): 0.787 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs RSpredict(seed) Matthews Correlation Coefficient Murlet(20): 0.230 RSpredict(seed): 0.212 Sensitivity Murlet(20): 0.067 RSpredict(seed): 0.075 Positive Predictive Value Murlet(20): 0.787 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs CMfinder(20) Matthews Correlation Coefficient Murlet(20): 0.230 CMfinder(20): 0.210 Sensitivity Murlet(20): 0.067 CMfinder(20): 0.055 Positive Predictive Value Murlet(20): 0.787 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs HotKnots Matthews Correlation Coefficient Murlet(20): 0.230 HotKnots: 0.179 Sensitivity Murlet(20): 0.067 HotKnots: 0.051 Positive Predictive Value Murlet(20): 0.787 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs RNASampler(20) Matthews Correlation Coefficient Murlet(20): 0.230 RNASampler(20): 0.176 Sensitivity Murlet(20): 0.067 RNASampler(20): 0.035 Positive Predictive Value Murlet(20): 0.787 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Cylofold Matthews Correlation Coefficient Murlet(20): 0.230 Cylofold: 0.155 Sensitivity Murlet(20): 0.067 Cylofold: 0.040 Positive Predictive Value Murlet(20): 0.787 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Pknots Matthews Correlation Coefficient Murlet(20): 0.230 Pknots: 0.143 Sensitivity Murlet(20): 0.067 Pknots: 0.033 Positive Predictive Value Murlet(20): 0.787 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Mastr(20) Matthews Correlation Coefficient Murlet(20): 0.230 Mastr(20): 0.134 Sensitivity Murlet(20): 0.067 Mastr(20): 0.023 Positive Predictive Value Murlet(20): 0.787 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Alterna Matthews Correlation Coefficient Murlet(20): 0.230 Alterna: 0.129 Sensitivity Murlet(20): 0.067 Alterna: 0.030 Positive Predictive Value Murlet(20): 0.787 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs MCFold Matthews Correlation Coefficient Murlet(20): 0.230 MCFold: 0.125 Sensitivity Murlet(20): 0.067 MCFold: 0.036 Positive Predictive Value Murlet(20): 0.787 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs RDfolder Matthews Correlation Coefficient Murlet(20): 0.230 RDfolder: 0.122 Sensitivity Murlet(20): 0.067 RDfolder: 0.025 Positive Predictive Value Murlet(20): 0.787 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Murlet(seed) Matthews Correlation Coefficient Murlet(20): 0.230 Murlet(seed): 0.079 Sensitivity Murlet(20): 0.067 Murlet(seed): 0.008 Positive Predictive Value Murlet(20): 0.787 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs CMfinder(seed) Matthews Correlation Coefficient Murlet(20): 0.230 CMfinder(seed): 0.080 Sensitivity Murlet(20): 0.067 CMfinder(seed): 0.008 Positive Predictive Value Murlet(20): 0.787 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs TurboFold(seed) Matthews Correlation Coefficient Murlet(20): 0.230 TurboFold(seed): 0.076 Sensitivity Murlet(20): 0.067 TurboFold(seed): 0.007 Positive Predictive Value Murlet(20): 0.787 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs PPfold(seed) Matthews Correlation Coefficient Murlet(20): 0.230 PPfold(seed): 0.069 Sensitivity Murlet(20): 0.067 PPfold(seed): 0.006 Positive Predictive Value Murlet(20): 0.787 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Carnac(seed) Matthews Correlation Coefficient Murlet(20): 0.230 Carnac(seed): 0.066 Sensitivity Murlet(20): 0.067 Carnac(seed): 0.005 Positive Predictive Value Murlet(20): 0.787 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs RNASampler(seed) Matthews Correlation Coefficient Murlet(20): 0.230 RNASampler(seed): 0.063 Sensitivity Murlet(20): 0.067 RNASampler(seed): 0.005 Positive Predictive Value Murlet(20): 0.787 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs NanoFolder Matthews Correlation Coefficient Murlet(20): 0.230 NanoFolder: 0.052 Sensitivity Murlet(20): 0.067 NanoFolder: 0.016 Positive Predictive Value Murlet(20): 0.787 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Mastr(seed) Matthews Correlation Coefficient Murlet(20): 0.230 Mastr(seed): 0.051 Sensitivity Murlet(20): 0.067 Mastr(seed): 0.003 Positive Predictive Value Murlet(20): 0.787 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Multilign(seed) Matthews Correlation Coefficient Murlet(20): 0.230 Multilign(seed): 0.043 Sensitivity Murlet(20): 0.067 Multilign(seed): 0.003 Positive Predictive Value Murlet(20): 0.787 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
Vsfold4	1987 ContextFold vs Vsfold4 Matthews Correlation Coefficient ContextFold: 0.680 Vsfold4: 0.217 Sensitivity ContextFold: 0.644 Vsfold4: 0.125 Positive Predictive Value ContextFold: 0.718 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs Vsfold4 Matthews Correlation Coefficient IPknot: 0.548 Vsfold4: 0.217 Sensitivity IPknot: 0.475 Vsfold4: 0.125 Positive Predictive Value IPknot: 0.632 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs Vsfold4 Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Vsfold4: 0.217 Sensitivity PETfold_pre2.0(seed): 0.343 Vsfold4: 0.125 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs Vsfold4 Matthews Correlation Coefficient Contrafold: 0.508 Vsfold4: 0.217 Sensitivity Contrafold: 0.481 Vsfold4: 0.125 Positive Predictive Value Contrafold: 0.537 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs Vsfold4 Matthews Correlation Coefficient CentroidFold: 0.470 Vsfold4: 0.217 Sensitivity CentroidFold: 0.369 Vsfold4: 0.125 Positive Predictive Value CentroidFold: 0.600 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs Vsfold4 Matthews Correlation Coefficient Sfold: 0.469 Vsfold4: 0.217 Sensitivity Sfold: 0.412 Vsfold4: 0.125 Positive Predictive Value Sfold: 0.535 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs Vsfold4 Matthews Correlation Coefficient MaxExpect: 0.465 Vsfold4: 0.217 Sensitivity MaxExpect: 0.443 Vsfold4: 0.125 Positive Predictive Value MaxExpect: 0.488 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs Vsfold4 Matthews Correlation Coefficient ProbKnot: 0.460 Vsfold4: 0.217 Sensitivity ProbKnot: 0.446 Vsfold4: 0.125 Positive Predictive Value ProbKnot: 0.475 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs Vsfold4 Matthews Correlation Coefficient UNAFold: 0.445 Vsfold4: 0.217 Sensitivity UNAFold: 0.445 Vsfold4: 0.125 Positive Predictive Value UNAFold: 0.446 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs Vsfold4 Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Vsfold4: 0.217 Sensitivity CentroidAlifold(seed): 0.213 Vsfold4: 0.125 Positive Predictive Value CentroidAlifold(seed): 0.901 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs Vsfold4 Matthews Correlation Coefficient Fold: 0.437 Vsfold4: 0.217 Sensitivity Fold: 0.432 Vsfold4: 0.125 Positive Predictive Value Fold: 0.444 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs Vsfold4 Matthews Correlation Coefficient RNAfold: 0.429 Vsfold4: 0.217 Sensitivity RNAfold: 0.422 Vsfold4: 0.125 Positive Predictive Value RNAfold: 0.437 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs Vsfold4 Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Vsfold4: 0.217 Sensitivity CentroidHomfold‑LAST: 0.216 Vsfold4: 0.125 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs Vsfold4 Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Vsfold4: 0.217 Sensitivity PETfold_pre2.0(20): 0.211 Vsfold4: 0.125 Positive Predictive Value PETfold_pre2.0(20): 0.807 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs Vsfold4 Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Vsfold4: 0.217 Sensitivity CentroidAlifold(20): 0.190 Vsfold4: 0.125 Positive Predictive Value CentroidAlifold(20): 0.891 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs Vsfold4 Matthews Correlation Coefficient PknotsRG: 0.386 Vsfold4: 0.217 Sensitivity PknotsRG: 0.320 Vsfold4: 0.125 Positive Predictive Value PknotsRG: 0.465 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs Vsfold4 Matthews Correlation Coefficient MXScarna(seed): 0.385 Vsfold4: 0.217 Sensitivity MXScarna(seed): 0.196 Vsfold4: 0.125 Positive Predictive Value MXScarna(seed): 0.753 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs Vsfold4 Matthews Correlation Coefficient RNAalifold(20): 0.381 Vsfold4: 0.217 Sensitivity RNAalifold(20): 0.185 Vsfold4: 0.125 Positive Predictive Value RNAalifold(20): 0.787 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs Vsfold4 Matthews Correlation Coefficient RNAalifold(seed): 0.375 Vsfold4: 0.217 Sensitivity RNAalifold(seed): 0.169 Vsfold4: 0.125 Positive Predictive Value RNAalifold(seed): 0.835 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs Vsfold4 Matthews Correlation Coefficient Afold: 0.358 Vsfold4: 0.217 Sensitivity Afold: 0.295 Vsfold4: 0.125 Positive Predictive Value Afold: 0.434 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs Vsfold4 Matthews Correlation Coefficient MXScarna(20): 0.359 Vsfold4: 0.217 Sensitivity MXScarna(20): 0.181 Vsfold4: 0.125 Positive Predictive Value MXScarna(20): 0.710 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs Vsfold4 Matthews Correlation Coefficient CRWrnafold: 0.346 Vsfold4: 0.217 Sensitivity CRWrnafold: 0.275 Vsfold4: 0.125 Positive Predictive Value CRWrnafold: 0.435 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs Vsfold4 Matthews Correlation Coefficient RNAsubopt: 0.336 Vsfold4: 0.217 Sensitivity RNAsubopt: 0.217 Vsfold4: 0.125 Positive Predictive Value RNAsubopt: 0.521 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs Vsfold4 Matthews Correlation Coefficient McQFold: 0.314 Vsfold4: 0.217 Sensitivity McQFold: 0.205 Vsfold4: 0.125 Positive Predictive Value McQFold: 0.480 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs Vsfold4 Matthews Correlation Coefficient TurboFold(20): 0.301 Vsfold4: 0.217 Sensitivity TurboFold(20): 0.108 Vsfold4: 0.125 Positive Predictive Value TurboFold(20): 0.837 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs Vsfold4 Matthews Correlation Coefficient PPfold(20): 0.298 Vsfold4: 0.217 Sensitivity PPfold(20): 0.101 Vsfold4: 0.125 Positive Predictive Value PPfold(20): 0.879 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs Vsfold4 Matthews Correlation Coefficient RNAshapes: 0.295 Vsfold4: 0.217 Sensitivity RNAshapes: 0.180 Vsfold4: 0.125 Positive Predictive Value RNAshapes: 0.484 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs Vsfold4 Matthews Correlation Coefficient Carnac(20): 0.288 Vsfold4: 0.217 Sensitivity Carnac(20): 0.093 Vsfold4: 0.125 Positive Predictive Value Carnac(20): 0.892 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs Vsfold4 Matthews Correlation Coefficient RNASLOpt: 0.281 Vsfold4: 0.217 Sensitivity RNASLOpt: 0.158 Vsfold4: 0.125 Positive Predictive Value RNASLOpt: 0.502 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs Vsfold4 Matthews Correlation Coefficient RSpredict(20): 0.270 Vsfold4: 0.217 Sensitivity RSpredict(20): 0.124 Vsfold4: 0.125 Positive Predictive Value RSpredict(20): 0.590 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs Vsfold4 Matthews Correlation Coefficient Multilign(20): 0.251 Vsfold4: 0.217 Sensitivity Multilign(20): 0.083 Vsfold4: 0.125 Positive Predictive Value Multilign(20): 0.762 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs Vsfold4 Matthews Correlation Coefficient RNAwolf: 0.251 Vsfold4: 0.217 Sensitivity RNAwolf: 0.191 Vsfold4: 0.125 Positive Predictive Value RNAwolf: 0.330 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs Vsfold4 Matthews Correlation Coefficient Murlet(20): 0.230 Vsfold4: 0.217 Sensitivity Murlet(20): 0.067 Vsfold4: 0.125 Positive Predictive Value Murlet(20): 0.787 Vsfold4: 0.378 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ Vsfold4 vs Vsfold5 Matthews Correlation Coefficient Vsfold4: 0.217 Vsfold5: 0.211 Sensitivity Vsfold4: 0.125 Vsfold5: 0.125 Positive Predictive Value Vsfold4: 0.378 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs RSpredict(seed) Matthews Correlation Coefficient Vsfold4: 0.217 RSpredict(seed): 0.212 Sensitivity Vsfold4: 0.125 RSpredict(seed): 0.075 Positive Predictive Value Vsfold4: 0.378 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.85233844192e-08	+ Vsfold4 vs CMfinder(20) Matthews Correlation Coefficient Vsfold4: 0.217 CMfinder(20): 0.210 Sensitivity Vsfold4: 0.125 CMfinder(20): 0.055 Positive Predictive Value Vsfold4: 0.378 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs HotKnots Matthews Correlation Coefficient Vsfold4: 0.217 HotKnots: 0.179 Sensitivity Vsfold4: 0.125 HotKnots: 0.051 Positive Predictive Value Vsfold4: 0.378 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs RNASampler(20) Matthews Correlation Coefficient Vsfold4: 0.217 RNASampler(20): 0.176 Sensitivity Vsfold4: 0.125 RNASampler(20): 0.035 Positive Predictive Value Vsfold4: 0.378 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs Cylofold Matthews Correlation Coefficient Vsfold4: 0.217 Cylofold: 0.155 Sensitivity Vsfold4: 0.125 Cylofold: 0.040 Positive Predictive Value Vsfold4: 0.378 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs Pknots Matthews Correlation Coefficient Vsfold4: 0.217 Pknots: 0.143 Sensitivity Vsfold4: 0.125 Pknots: 0.033 Positive Predictive Value Vsfold4: 0.378 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs Mastr(20) Matthews Correlation Coefficient Vsfold4: 0.217 Mastr(20): 0.134 Sensitivity Vsfold4: 0.125 Mastr(20): 0.023 Positive Predictive Value Vsfold4: 0.378 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs Alterna Matthews Correlation Coefficient Vsfold4: 0.217 Alterna: 0.129 Sensitivity Vsfold4: 0.125 Alterna: 0.030 Positive Predictive Value Vsfold4: 0.378 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs MCFold Matthews Correlation Coefficient Vsfold4: 0.217 MCFold: 0.125 Sensitivity Vsfold4: 0.125 MCFold: 0.036 Positive Predictive Value Vsfold4: 0.378 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs RDfolder Matthews Correlation Coefficient Vsfold4: 0.217 RDfolder: 0.122 Sensitivity Vsfold4: 0.125 RDfolder: 0.025 Positive Predictive Value Vsfold4: 0.378 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs Murlet(seed) Matthews Correlation Coefficient Vsfold4: 0.217 Murlet(seed): 0.079 Sensitivity Vsfold4: 0.125 Murlet(seed): 0.008 Positive Predictive Value Vsfold4: 0.378 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs CMfinder(seed) Matthews Correlation Coefficient Vsfold4: 0.217 CMfinder(seed): 0.080 Sensitivity Vsfold4: 0.125 CMfinder(seed): 0.008 Positive Predictive Value Vsfold4: 0.378 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs TurboFold(seed) Matthews Correlation Coefficient Vsfold4: 0.217 TurboFold(seed): 0.076 Sensitivity Vsfold4: 0.125 TurboFold(seed): 0.007 Positive Predictive Value Vsfold4: 0.378 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs PPfold(seed) Matthews Correlation Coefficient Vsfold4: 0.217 PPfold(seed): 0.069 Sensitivity Vsfold4: 0.125 PPfold(seed): 0.006 Positive Predictive Value Vsfold4: 0.378 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs Carnac(seed) Matthews Correlation Coefficient Vsfold4: 0.217 Carnac(seed): 0.066 Sensitivity Vsfold4: 0.125 Carnac(seed): 0.005 Positive Predictive Value Vsfold4: 0.378 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs RNASampler(seed) Matthews Correlation Coefficient Vsfold4: 0.217 RNASampler(seed): 0.063 Sensitivity Vsfold4: 0.125 RNASampler(seed): 0.005 Positive Predictive Value Vsfold4: 0.378 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs NanoFolder Matthews Correlation Coefficient Vsfold4: 0.217 NanoFolder: 0.052 Sensitivity Vsfold4: 0.125 NanoFolder: 0.016 Positive Predictive Value Vsfold4: 0.378 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs Mastr(seed) Matthews Correlation Coefficient Vsfold4: 0.217 Mastr(seed): 0.051 Sensitivity Vsfold4: 0.125 Mastr(seed): 0.003 Positive Predictive Value Vsfold4: 0.378 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs Multilign(seed) Matthews Correlation Coefficient Vsfold4: 0.217 Multilign(seed): 0.043 Sensitivity Vsfold4: 0.125 Multilign(seed): 0.003 Positive Predictive Value Vsfold4: 0.378 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
Vsfold5	1987 ContextFold vs Vsfold5 Matthews Correlation Coefficient ContextFold: 0.680 Vsfold5: 0.211 Sensitivity ContextFold: 0.644 Vsfold5: 0.125 Positive Predictive Value ContextFold: 0.718 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs Vsfold5 Matthews Correlation Coefficient IPknot: 0.548 Vsfold5: 0.211 Sensitivity IPknot: 0.475 Vsfold5: 0.125 Positive Predictive Value IPknot: 0.632 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs Vsfold5 Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Vsfold5: 0.211 Sensitivity PETfold_pre2.0(seed): 0.343 Vsfold5: 0.125 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs Vsfold5 Matthews Correlation Coefficient Contrafold: 0.508 Vsfold5: 0.211 Sensitivity Contrafold: 0.481 Vsfold5: 0.125 Positive Predictive Value Contrafold: 0.537 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs Vsfold5 Matthews Correlation Coefficient CentroidFold: 0.470 Vsfold5: 0.211 Sensitivity CentroidFold: 0.369 Vsfold5: 0.125 Positive Predictive Value CentroidFold: 0.600 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs Vsfold5 Matthews Correlation Coefficient Sfold: 0.469 Vsfold5: 0.211 Sensitivity Sfold: 0.412 Vsfold5: 0.125 Positive Predictive Value Sfold: 0.535 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs Vsfold5 Matthews Correlation Coefficient MaxExpect: 0.465 Vsfold5: 0.211 Sensitivity MaxExpect: 0.443 Vsfold5: 0.125 Positive Predictive Value MaxExpect: 0.488 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs Vsfold5 Matthews Correlation Coefficient ProbKnot: 0.460 Vsfold5: 0.211 Sensitivity ProbKnot: 0.446 Vsfold5: 0.125 Positive Predictive Value ProbKnot: 0.475 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs Vsfold5 Matthews Correlation Coefficient UNAFold: 0.445 Vsfold5: 0.211 Sensitivity UNAFold: 0.445 Vsfold5: 0.125 Positive Predictive Value UNAFold: 0.446 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs Vsfold5 Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Vsfold5: 0.211 Sensitivity CentroidAlifold(seed): 0.213 Vsfold5: 0.125 Positive Predictive Value CentroidAlifold(seed): 0.901 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs Vsfold5 Matthews Correlation Coefficient Fold: 0.437 Vsfold5: 0.211 Sensitivity Fold: 0.432 Vsfold5: 0.125 Positive Predictive Value Fold: 0.444 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs Vsfold5 Matthews Correlation Coefficient RNAfold: 0.429 Vsfold5: 0.211 Sensitivity RNAfold: 0.422 Vsfold5: 0.125 Positive Predictive Value RNAfold: 0.437 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs Vsfold5 Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Vsfold5: 0.211 Sensitivity CentroidHomfold‑LAST: 0.216 Vsfold5: 0.125 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs Vsfold5 Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Vsfold5: 0.211 Sensitivity PETfold_pre2.0(20): 0.211 Vsfold5: 0.125 Positive Predictive Value PETfold_pre2.0(20): 0.807 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs Vsfold5 Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Vsfold5: 0.211 Sensitivity CentroidAlifold(20): 0.190 Vsfold5: 0.125 Positive Predictive Value CentroidAlifold(20): 0.891 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs Vsfold5 Matthews Correlation Coefficient PknotsRG: 0.386 Vsfold5: 0.211 Sensitivity PknotsRG: 0.320 Vsfold5: 0.125 Positive Predictive Value PknotsRG: 0.465 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs Vsfold5 Matthews Correlation Coefficient MXScarna(seed): 0.385 Vsfold5: 0.211 Sensitivity MXScarna(seed): 0.196 Vsfold5: 0.125 Positive Predictive Value MXScarna(seed): 0.753 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs Vsfold5 Matthews Correlation Coefficient RNAalifold(20): 0.381 Vsfold5: 0.211 Sensitivity RNAalifold(20): 0.185 Vsfold5: 0.125 Positive Predictive Value RNAalifold(20): 0.787 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs Vsfold5 Matthews Correlation Coefficient RNAalifold(seed): 0.375 Vsfold5: 0.211 Sensitivity RNAalifold(seed): 0.169 Vsfold5: 0.125 Positive Predictive Value RNAalifold(seed): 0.835 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs Vsfold5 Matthews Correlation Coefficient Afold: 0.358 Vsfold5: 0.211 Sensitivity Afold: 0.295 Vsfold5: 0.125 Positive Predictive Value Afold: 0.434 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs Vsfold5 Matthews Correlation Coefficient MXScarna(20): 0.359 Vsfold5: 0.211 Sensitivity MXScarna(20): 0.181 Vsfold5: 0.125 Positive Predictive Value MXScarna(20): 0.710 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs Vsfold5 Matthews Correlation Coefficient CRWrnafold: 0.346 Vsfold5: 0.211 Sensitivity CRWrnafold: 0.275 Vsfold5: 0.125 Positive Predictive Value CRWrnafold: 0.435 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs Vsfold5 Matthews Correlation Coefficient RNAsubopt: 0.336 Vsfold5: 0.211 Sensitivity RNAsubopt: 0.217 Vsfold5: 0.125 Positive Predictive Value RNAsubopt: 0.521 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs Vsfold5 Matthews Correlation Coefficient McQFold: 0.314 Vsfold5: 0.211 Sensitivity McQFold: 0.205 Vsfold5: 0.125 Positive Predictive Value McQFold: 0.480 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs Vsfold5 Matthews Correlation Coefficient TurboFold(20): 0.301 Vsfold5: 0.211 Sensitivity TurboFold(20): 0.108 Vsfold5: 0.125 Positive Predictive Value TurboFold(20): 0.837 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs Vsfold5 Matthews Correlation Coefficient PPfold(20): 0.298 Vsfold5: 0.211 Sensitivity PPfold(20): 0.101 Vsfold5: 0.125 Positive Predictive Value PPfold(20): 0.879 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs Vsfold5 Matthews Correlation Coefficient RNAshapes: 0.295 Vsfold5: 0.211 Sensitivity RNAshapes: 0.180 Vsfold5: 0.125 Positive Predictive Value RNAshapes: 0.484 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs Vsfold5 Matthews Correlation Coefficient Carnac(20): 0.288 Vsfold5: 0.211 Sensitivity Carnac(20): 0.093 Vsfold5: 0.125 Positive Predictive Value Carnac(20): 0.892 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs Vsfold5 Matthews Correlation Coefficient RNASLOpt: 0.281 Vsfold5: 0.211 Sensitivity RNASLOpt: 0.158 Vsfold5: 0.125 Positive Predictive Value RNASLOpt: 0.502 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs Vsfold5 Matthews Correlation Coefficient RSpredict(20): 0.270 Vsfold5: 0.211 Sensitivity RSpredict(20): 0.124 Vsfold5: 0.125 Positive Predictive Value RSpredict(20): 0.590 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs Vsfold5 Matthews Correlation Coefficient Multilign(20): 0.251 Vsfold5: 0.211 Sensitivity Multilign(20): 0.083 Vsfold5: 0.125 Positive Predictive Value Multilign(20): 0.762 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs Vsfold5 Matthews Correlation Coefficient RNAwolf: 0.251 Vsfold5: 0.211 Sensitivity RNAwolf: 0.191 Vsfold5: 0.125 Positive Predictive Value RNAwolf: 0.330 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs Vsfold5 Matthews Correlation Coefficient Murlet(20): 0.230 Vsfold5: 0.211 Sensitivity Murlet(20): 0.067 Vsfold5: 0.125 Positive Predictive Value Murlet(20): 0.787 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs Vsfold5 Matthews Correlation Coefficient Vsfold4: 0.217 Vsfold5: 0.211 Sensitivity Vsfold4: 0.125 Vsfold5: 0.125 Positive Predictive Value Vsfold4: 0.378 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		= RSpredict(seed) vs Vsfold5 Matthews Correlation Coefficient RSpredict(seed): 0.212 Vsfold5: 0.211 Sensitivity RSpredict(seed): 0.075 Vsfold5: 0.125 Positive Predictive Value RSpredict(seed): 0.597 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.103865234064	+ Vsfold5 vs CMfinder(20) Matthews Correlation Coefficient Vsfold5: 0.211 CMfinder(20): 0.210 Sensitivity Vsfold5: 0.125 CMfinder(20): 0.055 Positive Predictive Value Vsfold5: 0.359 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 1.37177523642e-07	+ Vsfold5 vs HotKnots Matthews Correlation Coefficient Vsfold5: 0.211 HotKnots: 0.179 Sensitivity Vsfold5: 0.125 HotKnots: 0.051 Positive Predictive Value Vsfold5: 0.359 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs RNASampler(20) Matthews Correlation Coefficient Vsfold5: 0.211 RNASampler(20): 0.176 Sensitivity Vsfold5: 0.125 RNASampler(20): 0.035 Positive Predictive Value Vsfold5: 0.359 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs Cylofold Matthews Correlation Coefficient Vsfold5: 0.211 Cylofold: 0.155 Sensitivity Vsfold5: 0.125 Cylofold: 0.040 Positive Predictive Value Vsfold5: 0.359 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs Pknots Matthews Correlation Coefficient Vsfold5: 0.211 Pknots: 0.143 Sensitivity Vsfold5: 0.125 Pknots: 0.033 Positive Predictive Value Vsfold5: 0.359 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs Mastr(20) Matthews Correlation Coefficient Vsfold5: 0.211 Mastr(20): 0.134 Sensitivity Vsfold5: 0.125 Mastr(20): 0.023 Positive Predictive Value Vsfold5: 0.359 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs Alterna Matthews Correlation Coefficient Vsfold5: 0.211 Alterna: 0.129 Sensitivity Vsfold5: 0.125 Alterna: 0.030 Positive Predictive Value Vsfold5: 0.359 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs MCFold Matthews Correlation Coefficient Vsfold5: 0.211 MCFold: 0.125 Sensitivity Vsfold5: 0.125 MCFold: 0.036 Positive Predictive Value Vsfold5: 0.359 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs RDfolder Matthews Correlation Coefficient Vsfold5: 0.211 RDfolder: 0.122 Sensitivity Vsfold5: 0.125 RDfolder: 0.025 Positive Predictive Value Vsfold5: 0.359 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs Murlet(seed) Matthews Correlation Coefficient Vsfold5: 0.211 Murlet(seed): 0.079 Sensitivity Vsfold5: 0.125 Murlet(seed): 0.008 Positive Predictive Value Vsfold5: 0.359 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs CMfinder(seed) Matthews Correlation Coefficient Vsfold5: 0.211 CMfinder(seed): 0.080 Sensitivity Vsfold5: 0.125 CMfinder(seed): 0.008 Positive Predictive Value Vsfold5: 0.359 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs TurboFold(seed) Matthews Correlation Coefficient Vsfold5: 0.211 TurboFold(seed): 0.076 Sensitivity Vsfold5: 0.125 TurboFold(seed): 0.007 Positive Predictive Value Vsfold5: 0.359 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs PPfold(seed) Matthews Correlation Coefficient Vsfold5: 0.211 PPfold(seed): 0.069 Sensitivity Vsfold5: 0.125 PPfold(seed): 0.006 Positive Predictive Value Vsfold5: 0.359 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs Carnac(seed) Matthews Correlation Coefficient Vsfold5: 0.211 Carnac(seed): 0.066 Sensitivity Vsfold5: 0.125 Carnac(seed): 0.005 Positive Predictive Value Vsfold5: 0.359 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs RNASampler(seed) Matthews Correlation Coefficient Vsfold5: 0.211 RNASampler(seed): 0.063 Sensitivity Vsfold5: 0.125 RNASampler(seed): 0.005 Positive Predictive Value Vsfold5: 0.359 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs NanoFolder Matthews Correlation Coefficient Vsfold5: 0.211 NanoFolder: 0.052 Sensitivity Vsfold5: 0.125 NanoFolder: 0.016 Positive Predictive Value Vsfold5: 0.359 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs Mastr(seed) Matthews Correlation Coefficient Vsfold5: 0.211 Mastr(seed): 0.051 Sensitivity Vsfold5: 0.125 Mastr(seed): 0.003 Positive Predictive Value Vsfold5: 0.359 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs Multilign(seed) Matthews Correlation Coefficient Vsfold5: 0.211 Multilign(seed): 0.043 Sensitivity Vsfold5: 0.125 Multilign(seed): 0.003 Positive Predictive Value Vsfold5: 0.359 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
RSpredict(seed)	1987 ContextFold vs RSpredict(seed) Matthews Correlation Coefficient ContextFold: 0.680 RSpredict(seed): 0.212 Sensitivity ContextFold: 0.644 RSpredict(seed): 0.075 Positive Predictive Value ContextFold: 0.718 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs RSpredict(seed) Matthews Correlation Coefficient IPknot: 0.548 RSpredict(seed): 0.212 Sensitivity IPknot: 0.475 RSpredict(seed): 0.075 Positive Predictive Value IPknot: 0.632 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs RSpredict(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RSpredict(seed): 0.212 Sensitivity PETfold_pre2.0(seed): 0.343 RSpredict(seed): 0.075 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs RSpredict(seed) Matthews Correlation Coefficient Contrafold: 0.508 RSpredict(seed): 0.212 Sensitivity Contrafold: 0.481 RSpredict(seed): 0.075 Positive Predictive Value Contrafold: 0.537 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs RSpredict(seed) Matthews Correlation Coefficient CentroidFold: 0.470 RSpredict(seed): 0.212 Sensitivity CentroidFold: 0.369 RSpredict(seed): 0.075 Positive Predictive Value CentroidFold: 0.600 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs RSpredict(seed) Matthews Correlation Coefficient Sfold: 0.469 RSpredict(seed): 0.212 Sensitivity Sfold: 0.412 RSpredict(seed): 0.075 Positive Predictive Value Sfold: 0.535 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs RSpredict(seed) Matthews Correlation Coefficient MaxExpect: 0.465 RSpredict(seed): 0.212 Sensitivity MaxExpect: 0.443 RSpredict(seed): 0.075 Positive Predictive Value MaxExpect: 0.488 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs RSpredict(seed) Matthews Correlation Coefficient ProbKnot: 0.460 RSpredict(seed): 0.212 Sensitivity ProbKnot: 0.446 RSpredict(seed): 0.075 Positive Predictive Value ProbKnot: 0.475 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs RSpredict(seed) Matthews Correlation Coefficient UNAFold: 0.445 RSpredict(seed): 0.212 Sensitivity UNAFold: 0.445 RSpredict(seed): 0.075 Positive Predictive Value UNAFold: 0.446 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs RSpredict(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RSpredict(seed): 0.212 Sensitivity CentroidAlifold(seed): 0.213 RSpredict(seed): 0.075 Positive Predictive Value CentroidAlifold(seed): 0.901 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs RSpredict(seed) Matthews Correlation Coefficient Fold: 0.437 RSpredict(seed): 0.212 Sensitivity Fold: 0.432 RSpredict(seed): 0.075 Positive Predictive Value Fold: 0.444 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs RSpredict(seed) Matthews Correlation Coefficient RNAfold: 0.429 RSpredict(seed): 0.212 Sensitivity RNAfold: 0.422 RSpredict(seed): 0.075 Positive Predictive Value RNAfold: 0.437 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs RSpredict(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RSpredict(seed): 0.212 Sensitivity CentroidHomfold‑LAST: 0.216 RSpredict(seed): 0.075 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs RSpredict(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RSpredict(seed): 0.212 Sensitivity PETfold_pre2.0(20): 0.211 RSpredict(seed): 0.075 Positive Predictive Value PETfold_pre2.0(20): 0.807 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs RSpredict(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RSpredict(seed): 0.212 Sensitivity CentroidAlifold(20): 0.190 RSpredict(seed): 0.075 Positive Predictive Value CentroidAlifold(20): 0.891 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs RSpredict(seed) Matthews Correlation Coefficient PknotsRG: 0.386 RSpredict(seed): 0.212 Sensitivity PknotsRG: 0.320 RSpredict(seed): 0.075 Positive Predictive Value PknotsRG: 0.465 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs RSpredict(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 RSpredict(seed): 0.212 Sensitivity MXScarna(seed): 0.196 RSpredict(seed): 0.075 Positive Predictive Value MXScarna(seed): 0.753 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs RSpredict(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 RSpredict(seed): 0.212 Sensitivity RNAalifold(20): 0.185 RSpredict(seed): 0.075 Positive Predictive Value RNAalifold(20): 0.787 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs RSpredict(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.375 RSpredict(seed): 0.212 Sensitivity RNAalifold(seed): 0.169 RSpredict(seed): 0.075 Positive Predictive Value RNAalifold(seed): 0.835 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs RSpredict(seed) Matthews Correlation Coefficient Afold: 0.358 RSpredict(seed): 0.212 Sensitivity Afold: 0.295 RSpredict(seed): 0.075 Positive Predictive Value Afold: 0.434 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs RSpredict(seed) Matthews Correlation Coefficient MXScarna(20): 0.359 RSpredict(seed): 0.212 Sensitivity MXScarna(20): 0.181 RSpredict(seed): 0.075 Positive Predictive Value MXScarna(20): 0.710 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs RSpredict(seed) Matthews Correlation Coefficient CRWrnafold: 0.346 RSpredict(seed): 0.212 Sensitivity CRWrnafold: 0.275 RSpredict(seed): 0.075 Positive Predictive Value CRWrnafold: 0.435 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs RSpredict(seed) Matthews Correlation Coefficient RNAsubopt: 0.336 RSpredict(seed): 0.212 Sensitivity RNAsubopt: 0.217 RSpredict(seed): 0.075 Positive Predictive Value RNAsubopt: 0.521 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs RSpredict(seed) Matthews Correlation Coefficient McQFold: 0.314 RSpredict(seed): 0.212 Sensitivity McQFold: 0.205 RSpredict(seed): 0.075 Positive Predictive Value McQFold: 0.480 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs RSpredict(seed) Matthews Correlation Coefficient TurboFold(20): 0.301 RSpredict(seed): 0.212 Sensitivity TurboFold(20): 0.108 RSpredict(seed): 0.075 Positive Predictive Value TurboFold(20): 0.837 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs RSpredict(seed) Matthews Correlation Coefficient PPfold(20): 0.298 RSpredict(seed): 0.212 Sensitivity PPfold(20): 0.101 RSpredict(seed): 0.075 Positive Predictive Value PPfold(20): 0.879 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs RSpredict(seed) Matthews Correlation Coefficient RNAshapes: 0.295 RSpredict(seed): 0.212 Sensitivity RNAshapes: 0.180 RSpredict(seed): 0.075 Positive Predictive Value RNAshapes: 0.484 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs RSpredict(seed) Matthews Correlation Coefficient Carnac(20): 0.288 RSpredict(seed): 0.212 Sensitivity Carnac(20): 0.093 RSpredict(seed): 0.075 Positive Predictive Value Carnac(20): 0.892 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs RSpredict(seed) Matthews Correlation Coefficient RNASLOpt: 0.281 RSpredict(seed): 0.212 Sensitivity RNASLOpt: 0.158 RSpredict(seed): 0.075 Positive Predictive Value RNASLOpt: 0.502 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs RSpredict(seed) Matthews Correlation Coefficient RSpredict(20): 0.270 RSpredict(seed): 0.212 Sensitivity RSpredict(20): 0.124 RSpredict(seed): 0.075 Positive Predictive Value RSpredict(20): 0.590 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs RSpredict(seed) Matthews Correlation Coefficient Multilign(20): 0.251 RSpredict(seed): 0.212 Sensitivity Multilign(20): 0.083 RSpredict(seed): 0.075 Positive Predictive Value Multilign(20): 0.762 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs RSpredict(seed) Matthews Correlation Coefficient RNAwolf: 0.251 RSpredict(seed): 0.212 Sensitivity RNAwolf: 0.191 RSpredict(seed): 0.075 Positive Predictive Value RNAwolf: 0.330 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs RSpredict(seed) Matthews Correlation Coefficient Murlet(20): 0.230 RSpredict(seed): 0.212 Sensitivity Murlet(20): 0.067 RSpredict(seed): 0.075 Positive Predictive Value Murlet(20): 0.787 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs RSpredict(seed) Matthews Correlation Coefficient Vsfold4: 0.217 RSpredict(seed): 0.212 Sensitivity Vsfold4: 0.125 RSpredict(seed): 0.075 Positive Predictive Value Vsfold4: 0.378 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.85233844192e-08	1987 RSpredict(seed) vs Vsfold5 Matthews Correlation Coefficient RSpredict(seed): 0.212 Vsfold5: 0.211 Sensitivity RSpredict(seed): 0.075 Vsfold5: 0.125 Positive Predictive Value RSpredict(seed): 0.597 Vsfold5: 0.359 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.103865234064		= RSpredict(seed) vs CMfinder(20) Matthews Correlation Coefficient RSpredict(seed): 0.212 CMfinder(20): 0.210 Sensitivity RSpredict(seed): 0.075 CMfinder(20): 0.055 Positive Predictive Value RSpredict(seed): 0.597 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.00108987668019	+ RSpredict(seed) vs HotKnots Matthews Correlation Coefficient RSpredict(seed): 0.212 HotKnots: 0.179 Sensitivity RSpredict(seed): 0.075 HotKnots: 0.051 Positive Predictive Value RSpredict(seed): 0.597 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs RNASampler(20) Matthews Correlation Coefficient RSpredict(seed): 0.212 RNASampler(20): 0.176 Sensitivity RSpredict(seed): 0.075 RNASampler(20): 0.035 Positive Predictive Value RSpredict(seed): 0.597 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs Cylofold Matthews Correlation Coefficient RSpredict(seed): 0.212 Cylofold: 0.155 Sensitivity RSpredict(seed): 0.075 Cylofold: 0.040 Positive Predictive Value RSpredict(seed): 0.597 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs Pknots Matthews Correlation Coefficient RSpredict(seed): 0.212 Pknots: 0.143 Sensitivity RSpredict(seed): 0.075 Pknots: 0.033 Positive Predictive Value RSpredict(seed): 0.597 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs Mastr(20) Matthews Correlation Coefficient RSpredict(seed): 0.212 Mastr(20): 0.134 Sensitivity RSpredict(seed): 0.075 Mastr(20): 0.023 Positive Predictive Value RSpredict(seed): 0.597 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs Alterna Matthews Correlation Coefficient RSpredict(seed): 0.212 Alterna: 0.129 Sensitivity RSpredict(seed): 0.075 Alterna: 0.030 Positive Predictive Value RSpredict(seed): 0.597 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs MCFold Matthews Correlation Coefficient RSpredict(seed): 0.212 MCFold: 0.125 Sensitivity RSpredict(seed): 0.075 MCFold: 0.036 Positive Predictive Value RSpredict(seed): 0.597 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs RDfolder Matthews Correlation Coefficient RSpredict(seed): 0.212 RDfolder: 0.122 Sensitivity RSpredict(seed): 0.075 RDfolder: 0.025 Positive Predictive Value RSpredict(seed): 0.597 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs Murlet(seed) Matthews Correlation Coefficient RSpredict(seed): 0.212 Murlet(seed): 0.079 Sensitivity RSpredict(seed): 0.075 Murlet(seed): 0.008 Positive Predictive Value RSpredict(seed): 0.597 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs CMfinder(seed) Matthews Correlation Coefficient RSpredict(seed): 0.212 CMfinder(seed): 0.080 Sensitivity RSpredict(seed): 0.075 CMfinder(seed): 0.008 Positive Predictive Value RSpredict(seed): 0.597 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs TurboFold(seed) Matthews Correlation Coefficient RSpredict(seed): 0.212 TurboFold(seed): 0.076 Sensitivity RSpredict(seed): 0.075 TurboFold(seed): 0.007 Positive Predictive Value RSpredict(seed): 0.597 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs PPfold(seed) Matthews Correlation Coefficient RSpredict(seed): 0.212 PPfold(seed): 0.069 Sensitivity RSpredict(seed): 0.075 PPfold(seed): 0.006 Positive Predictive Value RSpredict(seed): 0.597 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs Carnac(seed) Matthews Correlation Coefficient RSpredict(seed): 0.212 Carnac(seed): 0.066 Sensitivity RSpredict(seed): 0.075 Carnac(seed): 0.005 Positive Predictive Value RSpredict(seed): 0.597 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs RNASampler(seed) Matthews Correlation Coefficient RSpredict(seed): 0.212 RNASampler(seed): 0.063 Sensitivity RSpredict(seed): 0.075 RNASampler(seed): 0.005 Positive Predictive Value RSpredict(seed): 0.597 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs NanoFolder Matthews Correlation Coefficient RSpredict(seed): 0.212 NanoFolder: 0.052 Sensitivity RSpredict(seed): 0.075 NanoFolder: 0.016 Positive Predictive Value RSpredict(seed): 0.597 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs Mastr(seed) Matthews Correlation Coefficient RSpredict(seed): 0.212 Mastr(seed): 0.051 Sensitivity RSpredict(seed): 0.075 Mastr(seed): 0.003 Positive Predictive Value RSpredict(seed): 0.597 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs Multilign(seed) Matthews Correlation Coefficient RSpredict(seed): 0.212 Multilign(seed): 0.043 Sensitivity RSpredict(seed): 0.075 Multilign(seed): 0.003 Positive Predictive Value RSpredict(seed): 0.597 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
CMfinder(20)	1987 ContextFold vs CMfinder(20) Matthews Correlation Coefficient ContextFold: 0.680 CMfinder(20): 0.210 Sensitivity ContextFold: 0.644 CMfinder(20): 0.055 Positive Predictive Value ContextFold: 0.718 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs CMfinder(20) Matthews Correlation Coefficient IPknot: 0.548 CMfinder(20): 0.210 Sensitivity IPknot: 0.475 CMfinder(20): 0.055 Positive Predictive Value IPknot: 0.632 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs CMfinder(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 CMfinder(20): 0.210 Sensitivity PETfold_pre2.0(seed): 0.343 CMfinder(20): 0.055 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs CMfinder(20) Matthews Correlation Coefficient Contrafold: 0.508 CMfinder(20): 0.210 Sensitivity Contrafold: 0.481 CMfinder(20): 0.055 Positive Predictive Value Contrafold: 0.537 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs CMfinder(20) Matthews Correlation Coefficient CentroidFold: 0.470 CMfinder(20): 0.210 Sensitivity CentroidFold: 0.369 CMfinder(20): 0.055 Positive Predictive Value CentroidFold: 0.600 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs CMfinder(20) Matthews Correlation Coefficient Sfold: 0.469 CMfinder(20): 0.210 Sensitivity Sfold: 0.412 CMfinder(20): 0.055 Positive Predictive Value Sfold: 0.535 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs CMfinder(20) Matthews Correlation Coefficient MaxExpect: 0.465 CMfinder(20): 0.210 Sensitivity MaxExpect: 0.443 CMfinder(20): 0.055 Positive Predictive Value MaxExpect: 0.488 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs CMfinder(20) Matthews Correlation Coefficient ProbKnot: 0.460 CMfinder(20): 0.210 Sensitivity ProbKnot: 0.446 CMfinder(20): 0.055 Positive Predictive Value ProbKnot: 0.475 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs CMfinder(20) Matthews Correlation Coefficient UNAFold: 0.445 CMfinder(20): 0.210 Sensitivity UNAFold: 0.445 CMfinder(20): 0.055 Positive Predictive Value UNAFold: 0.446 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs CMfinder(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 CMfinder(20): 0.210 Sensitivity CentroidAlifold(seed): 0.213 CMfinder(20): 0.055 Positive Predictive Value CentroidAlifold(seed): 0.901 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs CMfinder(20) Matthews Correlation Coefficient Fold: 0.437 CMfinder(20): 0.210 Sensitivity Fold: 0.432 CMfinder(20): 0.055 Positive Predictive Value Fold: 0.444 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs CMfinder(20) Matthews Correlation Coefficient RNAfold: 0.429 CMfinder(20): 0.210 Sensitivity RNAfold: 0.422 CMfinder(20): 0.055 Positive Predictive Value RNAfold: 0.437 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs CMfinder(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 CMfinder(20): 0.210 Sensitivity CentroidHomfold‑LAST: 0.216 CMfinder(20): 0.055 Positive Predictive Value CentroidHomfold‑LAST: 0.850 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs CMfinder(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 CMfinder(20): 0.210 Sensitivity PETfold_pre2.0(20): 0.211 CMfinder(20): 0.055 Positive Predictive Value PETfold_pre2.0(20): 0.807 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs CMfinder(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 CMfinder(20): 0.210 Sensitivity CentroidAlifold(20): 0.190 CMfinder(20): 0.055 Positive Predictive Value CentroidAlifold(20): 0.891 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs CMfinder(20) Matthews Correlation Coefficient PknotsRG: 0.386 CMfinder(20): 0.210 Sensitivity PknotsRG: 0.320 CMfinder(20): 0.055 Positive Predictive Value PknotsRG: 0.465 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs CMfinder(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 CMfinder(20): 0.210 Sensitivity MXScarna(seed): 0.196 CMfinder(20): 0.055 Positive Predictive Value MXScarna(seed): 0.753 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs CMfinder(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 CMfinder(20): 0.210 Sensitivity RNAalifold(20): 0.185 CMfinder(20): 0.055 Positive Predictive Value RNAalifold(20): 0.787 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs CMfinder(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 CMfinder(20): 0.210 Sensitivity RNAalifold(seed): 0.169 CMfinder(20): 0.055 Positive Predictive Value RNAalifold(seed): 0.835 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs CMfinder(20) Matthews Correlation Coefficient Afold: 0.358 CMfinder(20): 0.210 Sensitivity Afold: 0.295 CMfinder(20): 0.055 Positive Predictive Value Afold: 0.434 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs CMfinder(20) Matthews Correlation Coefficient MXScarna(20): 0.359 CMfinder(20): 0.210 Sensitivity MXScarna(20): 0.181 CMfinder(20): 0.055 Positive Predictive Value MXScarna(20): 0.710 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs CMfinder(20) Matthews Correlation Coefficient CRWrnafold: 0.346 CMfinder(20): 0.210 Sensitivity CRWrnafold: 0.275 CMfinder(20): 0.055 Positive Predictive Value CRWrnafold: 0.435 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs CMfinder(20) Matthews Correlation Coefficient RNAsubopt: 0.336 CMfinder(20): 0.210 Sensitivity RNAsubopt: 0.217 CMfinder(20): 0.055 Positive Predictive Value RNAsubopt: 0.521 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs CMfinder(20) Matthews Correlation Coefficient McQFold: 0.314 CMfinder(20): 0.210 Sensitivity McQFold: 0.205 CMfinder(20): 0.055 Positive Predictive Value McQFold: 0.480 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs CMfinder(20) Matthews Correlation Coefficient TurboFold(20): 0.301 CMfinder(20): 0.210 Sensitivity TurboFold(20): 0.108 CMfinder(20): 0.055 Positive Predictive Value TurboFold(20): 0.837 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs CMfinder(20) Matthews Correlation Coefficient PPfold(20): 0.298 CMfinder(20): 0.210 Sensitivity PPfold(20): 0.101 CMfinder(20): 0.055 Positive Predictive Value PPfold(20): 0.879 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs CMfinder(20) Matthews Correlation Coefficient RNAshapes: 0.295 CMfinder(20): 0.210 Sensitivity RNAshapes: 0.180 CMfinder(20): 0.055 Positive Predictive Value RNAshapes: 0.484 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs CMfinder(20) Matthews Correlation Coefficient Carnac(20): 0.288 CMfinder(20): 0.210 Sensitivity Carnac(20): 0.093 CMfinder(20): 0.055 Positive Predictive Value Carnac(20): 0.892 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs CMfinder(20) Matthews Correlation Coefficient RNASLOpt: 0.281 CMfinder(20): 0.210 Sensitivity RNASLOpt: 0.158 CMfinder(20): 0.055 Positive Predictive Value RNASLOpt: 0.502 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs CMfinder(20) Matthews Correlation Coefficient RSpredict(20): 0.270 CMfinder(20): 0.210 Sensitivity RSpredict(20): 0.124 CMfinder(20): 0.055 Positive Predictive Value RSpredict(20): 0.590 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs CMfinder(20) Matthews Correlation Coefficient Multilign(20): 0.251 CMfinder(20): 0.210 Sensitivity Multilign(20): 0.083 CMfinder(20): 0.055 Positive Predictive Value Multilign(20): 0.762 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs CMfinder(20) Matthews Correlation Coefficient RNAwolf: 0.251 CMfinder(20): 0.210 Sensitivity RNAwolf: 0.191 CMfinder(20): 0.055 Positive Predictive Value RNAwolf: 0.330 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs CMfinder(20) Matthews Correlation Coefficient Murlet(20): 0.230 CMfinder(20): 0.210 Sensitivity Murlet(20): 0.067 CMfinder(20): 0.055 Positive Predictive Value Murlet(20): 0.787 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs CMfinder(20) Matthews Correlation Coefficient Vsfold4: 0.217 CMfinder(20): 0.210 Sensitivity Vsfold4: 0.125 CMfinder(20): 0.055 Positive Predictive Value Vsfold4: 0.378 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold5 vs CMfinder(20) Matthews Correlation Coefficient Vsfold5: 0.211 CMfinder(20): 0.210 Sensitivity Vsfold5: 0.125 CMfinder(20): 0.055 Positive Predictive Value Vsfold5: 0.359 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 1.37177523642e-07	1987 RSpredict(seed) vs CMfinder(20) Matthews Correlation Coefficient RSpredict(seed): 0.212 CMfinder(20): 0.210 Sensitivity RSpredict(seed): 0.075 CMfinder(20): 0.055 Positive Predictive Value RSpredict(seed): 0.597 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.00108987668019		+ CMfinder(20) vs HotKnots Matthews Correlation Coefficient CMfinder(20): 0.210 HotKnots: 0.179 Sensitivity CMfinder(20): 0.055 HotKnots: 0.051 Positive Predictive Value CMfinder(20): 0.794 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs RNASampler(20) Matthews Correlation Coefficient CMfinder(20): 0.210 RNASampler(20): 0.176 Sensitivity CMfinder(20): 0.055 RNASampler(20): 0.035 Positive Predictive Value CMfinder(20): 0.794 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs Cylofold Matthews Correlation Coefficient CMfinder(20): 0.210 Cylofold: 0.155 Sensitivity CMfinder(20): 0.055 Cylofold: 0.040 Positive Predictive Value CMfinder(20): 0.794 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs Pknots Matthews Correlation Coefficient CMfinder(20): 0.210 Pknots: 0.143 Sensitivity CMfinder(20): 0.055 Pknots: 0.033 Positive Predictive Value CMfinder(20): 0.794 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs Mastr(20) Matthews Correlation Coefficient CMfinder(20): 0.210 Mastr(20): 0.134 Sensitivity CMfinder(20): 0.055 Mastr(20): 0.023 Positive Predictive Value CMfinder(20): 0.794 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs Alterna Matthews Correlation Coefficient CMfinder(20): 0.210 Alterna: 0.129 Sensitivity CMfinder(20): 0.055 Alterna: 0.030 Positive Predictive Value CMfinder(20): 0.794 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs MCFold Matthews Correlation Coefficient CMfinder(20): 0.210 MCFold: 0.125 Sensitivity CMfinder(20): 0.055 MCFold: 0.036 Positive Predictive Value CMfinder(20): 0.794 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs RDfolder Matthews Correlation Coefficient CMfinder(20): 0.210 RDfolder: 0.122 Sensitivity CMfinder(20): 0.055 RDfolder: 0.025 Positive Predictive Value CMfinder(20): 0.794 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs Murlet(seed) Matthews Correlation Coefficient CMfinder(20): 0.210 Murlet(seed): 0.079 Sensitivity CMfinder(20): 0.055 Murlet(seed): 0.008 Positive Predictive Value CMfinder(20): 0.794 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs CMfinder(seed) Matthews Correlation Coefficient CMfinder(20): 0.210 CMfinder(seed): 0.080 Sensitivity CMfinder(20): 0.055 CMfinder(seed): 0.008 Positive Predictive Value CMfinder(20): 0.794 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs TurboFold(seed) Matthews Correlation Coefficient CMfinder(20): 0.210 TurboFold(seed): 0.076 Sensitivity CMfinder(20): 0.055 TurboFold(seed): 0.007 Positive Predictive Value CMfinder(20): 0.794 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs PPfold(seed) Matthews Correlation Coefficient CMfinder(20): 0.210 PPfold(seed): 0.069 Sensitivity CMfinder(20): 0.055 PPfold(seed): 0.006 Positive Predictive Value CMfinder(20): 0.794 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs Carnac(seed) Matthews Correlation Coefficient CMfinder(20): 0.210 Carnac(seed): 0.066 Sensitivity CMfinder(20): 0.055 Carnac(seed): 0.005 Positive Predictive Value CMfinder(20): 0.794 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs RNASampler(seed) Matthews Correlation Coefficient CMfinder(20): 0.210 RNASampler(seed): 0.063 Sensitivity CMfinder(20): 0.055 RNASampler(seed): 0.005 Positive Predictive Value CMfinder(20): 0.794 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs NanoFolder Matthews Correlation Coefficient CMfinder(20): 0.210 NanoFolder: 0.052 Sensitivity CMfinder(20): 0.055 NanoFolder: 0.016 Positive Predictive Value CMfinder(20): 0.794 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs Mastr(seed) Matthews Correlation Coefficient CMfinder(20): 0.210 Mastr(seed): 0.051 Sensitivity CMfinder(20): 0.055 Mastr(seed): 0.003 Positive Predictive Value CMfinder(20): 0.794 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs Multilign(seed) Matthews Correlation Coefficient CMfinder(20): 0.210 Multilign(seed): 0.043 Sensitivity CMfinder(20): 0.055 Multilign(seed): 0.003 Positive Predictive Value CMfinder(20): 0.794 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
HotKnots	1987 ContextFold vs HotKnots Matthews Correlation Coefficient ContextFold: 0.680 HotKnots: 0.179 Sensitivity ContextFold: 0.644 HotKnots: 0.051 Positive Predictive Value ContextFold: 0.718 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs HotKnots Matthews Correlation Coefficient IPknot: 0.548 HotKnots: 0.179 Sensitivity IPknot: 0.475 HotKnots: 0.051 Positive Predictive Value IPknot: 0.632 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs HotKnots Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 HotKnots: 0.179 Sensitivity PETfold_pre2.0(seed): 0.343 HotKnots: 0.051 Positive Predictive Value PETfold_pre2.0(seed): 0.814 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs HotKnots Matthews Correlation Coefficient Contrafold: 0.508 HotKnots: 0.179 Sensitivity Contrafold: 0.481 HotKnots: 0.051 Positive Predictive Value Contrafold: 0.537 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs HotKnots Matthews Correlation Coefficient CentroidFold: 0.470 HotKnots: 0.179 Sensitivity CentroidFold: 0.369 HotKnots: 0.051 Positive Predictive Value CentroidFold: 0.600 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs HotKnots Matthews Correlation Coefficient Sfold: 0.469 HotKnots: 0.179 Sensitivity Sfold: 0.412 HotKnots: 0.051 Positive Predictive Value Sfold: 0.535 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs HotKnots Matthews Correlation Coefficient MaxExpect: 0.465 HotKnots: 0.179 Sensitivity MaxExpect: 0.443 HotKnots: 0.051 Positive Predictive Value MaxExpect: 0.488 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs HotKnots Matthews Correlation Coefficient ProbKnot: 0.460 HotKnots: 0.179 Sensitivity ProbKnot: 0.446 HotKnots: 0.051 Positive Predictive Value ProbKnot: 0.475 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs HotKnots Matthews Correlation Coefficient UNAFold: 0.445 HotKnots: 0.179 Sensitivity UNAFold: 0.445 HotKnots: 0.051 Positive Predictive Value UNAFold: 0.446 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs HotKnots Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 HotKnots: 0.179 Sensitivity CentroidAlifold(seed): 0.213 HotKnots: 0.051 Positive Predictive Value CentroidAlifold(seed): 0.901 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs HotKnots Matthews Correlation Coefficient Fold: 0.437 HotKnots: 0.179 Sensitivity Fold: 0.432 HotKnots: 0.051 Positive Predictive Value Fold: 0.444 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs HotKnots Matthews Correlation Coefficient RNAfold: 0.429 HotKnots: 0.179 Sensitivity RNAfold: 0.422 HotKnots: 0.051 Positive Predictive Value RNAfold: 0.437 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs HotKnots Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 HotKnots: 0.179 Sensitivity CentroidHomfold‑LAST: 0.216 HotKnots: 0.051 Positive Predictive Value CentroidHomfold‑LAST: 0.850 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs HotKnots Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 HotKnots: 0.179 Sensitivity PETfold_pre2.0(20): 0.211 HotKnots: 0.051 Positive Predictive Value PETfold_pre2.0(20): 0.807 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs HotKnots Matthews Correlation Coefficient CentroidAlifold(20): 0.411 HotKnots: 0.179 Sensitivity CentroidAlifold(20): 0.190 HotKnots: 0.051 Positive Predictive Value CentroidAlifold(20): 0.891 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs HotKnots Matthews Correlation Coefficient PknotsRG: 0.386 HotKnots: 0.179 Sensitivity PknotsRG: 0.320 HotKnots: 0.051 Positive Predictive Value PknotsRG: 0.465 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs HotKnots Matthews Correlation Coefficient MXScarna(seed): 0.385 HotKnots: 0.179 Sensitivity MXScarna(seed): 0.196 HotKnots: 0.051 Positive Predictive Value MXScarna(seed): 0.753 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs HotKnots Matthews Correlation Coefficient RNAalifold(20): 0.381 HotKnots: 0.179 Sensitivity RNAalifold(20): 0.185 HotKnots: 0.051 Positive Predictive Value RNAalifold(20): 0.787 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs HotKnots Matthews Correlation Coefficient RNAalifold(seed): 0.375 HotKnots: 0.179 Sensitivity RNAalifold(seed): 0.169 HotKnots: 0.051 Positive Predictive Value RNAalifold(seed): 0.835 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs HotKnots Matthews Correlation Coefficient Afold: 0.358 HotKnots: 0.179 Sensitivity Afold: 0.295 HotKnots: 0.051 Positive Predictive Value Afold: 0.434 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs HotKnots Matthews Correlation Coefficient MXScarna(20): 0.359 HotKnots: 0.179 Sensitivity MXScarna(20): 0.181 HotKnots: 0.051 Positive Predictive Value MXScarna(20): 0.710 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs HotKnots Matthews Correlation Coefficient CRWrnafold: 0.346 HotKnots: 0.179 Sensitivity CRWrnafold: 0.275 HotKnots: 0.051 Positive Predictive Value CRWrnafold: 0.435 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs HotKnots Matthews Correlation Coefficient RNAsubopt: 0.336 HotKnots: 0.179 Sensitivity RNAsubopt: 0.217 HotKnots: 0.051 Positive Predictive Value RNAsubopt: 0.521 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs HotKnots Matthews Correlation Coefficient McQFold: 0.314 HotKnots: 0.179 Sensitivity McQFold: 0.205 HotKnots: 0.051 Positive Predictive Value McQFold: 0.480 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs HotKnots Matthews Correlation Coefficient TurboFold(20): 0.301 HotKnots: 0.179 Sensitivity TurboFold(20): 0.108 HotKnots: 0.051 Positive Predictive Value TurboFold(20): 0.837 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs HotKnots Matthews Correlation Coefficient PPfold(20): 0.298 HotKnots: 0.179 Sensitivity PPfold(20): 0.101 HotKnots: 0.051 Positive Predictive Value PPfold(20): 0.879 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs HotKnots Matthews Correlation Coefficient RNAshapes: 0.295 HotKnots: 0.179 Sensitivity RNAshapes: 0.180 HotKnots: 0.051 Positive Predictive Value RNAshapes: 0.484 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs HotKnots Matthews Correlation Coefficient Carnac(20): 0.288 HotKnots: 0.179 Sensitivity Carnac(20): 0.093 HotKnots: 0.051 Positive Predictive Value Carnac(20): 0.892 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs HotKnots Matthews Correlation Coefficient RNASLOpt: 0.281 HotKnots: 0.179 Sensitivity RNASLOpt: 0.158 HotKnots: 0.051 Positive Predictive Value RNASLOpt: 0.502 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs HotKnots Matthews Correlation Coefficient RSpredict(20): 0.270 HotKnots: 0.179 Sensitivity RSpredict(20): 0.124 HotKnots: 0.051 Positive Predictive Value RSpredict(20): 0.590 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs HotKnots Matthews Correlation Coefficient Multilign(20): 0.251 HotKnots: 0.179 Sensitivity Multilign(20): 0.083 HotKnots: 0.051 Positive Predictive Value Multilign(20): 0.762 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs HotKnots Matthews Correlation Coefficient RNAwolf: 0.251 HotKnots: 0.179 Sensitivity RNAwolf: 0.191 HotKnots: 0.051 Positive Predictive Value RNAwolf: 0.330 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs HotKnots Matthews Correlation Coefficient Murlet(20): 0.230 HotKnots: 0.179 Sensitivity Murlet(20): 0.067 HotKnots: 0.051 Positive Predictive Value Murlet(20): 0.787 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs HotKnots Matthews Correlation Coefficient Vsfold4: 0.217 HotKnots: 0.179 Sensitivity Vsfold4: 0.125 HotKnots: 0.051 Positive Predictive Value Vsfold4: 0.378 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold5 vs HotKnots Matthews Correlation Coefficient Vsfold5: 0.211 HotKnots: 0.179 Sensitivity Vsfold5: 0.125 HotKnots: 0.051 Positive Predictive Value Vsfold5: 0.359 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(seed) vs HotKnots Matthews Correlation Coefficient RSpredict(seed): 0.212 HotKnots: 0.179 Sensitivity RSpredict(seed): 0.075 HotKnots: 0.051 Positive Predictive Value RSpredict(seed): 0.597 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(20) vs HotKnots Matthews Correlation Coefficient CMfinder(20): 0.210 HotKnots: 0.179 Sensitivity CMfinder(20): 0.055 HotKnots: 0.051 Positive Predictive Value CMfinder(20): 0.794 HotKnots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ HotKnots vs RNASampler(20) Matthews Correlation Coefficient HotKnots: 0.179 RNASampler(20): 0.176 Sensitivity HotKnots: 0.051 RNASampler(20): 0.035 Positive Predictive Value HotKnots: 0.624 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 5.7281986208e-07	+ HotKnots vs Cylofold Matthews Correlation Coefficient HotKnots: 0.179 Cylofold: 0.155 Sensitivity HotKnots: 0.051 Cylofold: 0.040 Positive Predictive Value HotKnots: 0.624 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs Pknots Matthews Correlation Coefficient HotKnots: 0.179 Pknots: 0.143 Sensitivity HotKnots: 0.051 Pknots: 0.033 Positive Predictive Value HotKnots: 0.624 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs Mastr(20) Matthews Correlation Coefficient HotKnots: 0.179 Mastr(20): 0.134 Sensitivity HotKnots: 0.051 Mastr(20): 0.023 Positive Predictive Value HotKnots: 0.624 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs Alterna Matthews Correlation Coefficient HotKnots: 0.179 Alterna: 0.129 Sensitivity HotKnots: 0.051 Alterna: 0.030 Positive Predictive Value HotKnots: 0.624 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs MCFold Matthews Correlation Coefficient HotKnots: 0.179 MCFold: 0.125 Sensitivity HotKnots: 0.051 MCFold: 0.036 Positive Predictive Value HotKnots: 0.624 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs RDfolder Matthews Correlation Coefficient HotKnots: 0.179 RDfolder: 0.122 Sensitivity HotKnots: 0.051 RDfolder: 0.025 Positive Predictive Value HotKnots: 0.624 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs Murlet(seed) Matthews Correlation Coefficient HotKnots: 0.179 Murlet(seed): 0.079 Sensitivity HotKnots: 0.051 Murlet(seed): 0.008 Positive Predictive Value HotKnots: 0.624 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs CMfinder(seed) Matthews Correlation Coefficient HotKnots: 0.179 CMfinder(seed): 0.080 Sensitivity HotKnots: 0.051 CMfinder(seed): 0.008 Positive Predictive Value HotKnots: 0.624 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs TurboFold(seed) Matthews Correlation Coefficient HotKnots: 0.179 TurboFold(seed): 0.076 Sensitivity HotKnots: 0.051 TurboFold(seed): 0.007 Positive Predictive Value HotKnots: 0.624 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs PPfold(seed) Matthews Correlation Coefficient HotKnots: 0.179 PPfold(seed): 0.069 Sensitivity HotKnots: 0.051 PPfold(seed): 0.006 Positive Predictive Value HotKnots: 0.624 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs Carnac(seed) Matthews Correlation Coefficient HotKnots: 0.179 Carnac(seed): 0.066 Sensitivity HotKnots: 0.051 Carnac(seed): 0.005 Positive Predictive Value HotKnots: 0.624 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs RNASampler(seed) Matthews Correlation Coefficient HotKnots: 0.179 RNASampler(seed): 0.063 Sensitivity HotKnots: 0.051 RNASampler(seed): 0.005 Positive Predictive Value HotKnots: 0.624 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs NanoFolder Matthews Correlation Coefficient HotKnots: 0.179 NanoFolder: 0.052 Sensitivity HotKnots: 0.051 NanoFolder: 0.016 Positive Predictive Value HotKnots: 0.624 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs Mastr(seed) Matthews Correlation Coefficient HotKnots: 0.179 Mastr(seed): 0.051 Sensitivity HotKnots: 0.051 Mastr(seed): 0.003 Positive Predictive Value HotKnots: 0.624 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs Multilign(seed) Matthews Correlation Coefficient HotKnots: 0.179 Multilign(seed): 0.043 Sensitivity HotKnots: 0.051 Multilign(seed): 0.003 Positive Predictive Value HotKnots: 0.624 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
RNASampler(20)	1987 ContextFold vs RNASampler(20) Matthews Correlation Coefficient ContextFold: 0.680 RNASampler(20): 0.176 Sensitivity ContextFold: 0.644 RNASampler(20): 0.035 Positive Predictive Value ContextFold: 0.718 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs RNASampler(20) Matthews Correlation Coefficient IPknot: 0.548 RNASampler(20): 0.176 Sensitivity IPknot: 0.475 RNASampler(20): 0.035 Positive Predictive Value IPknot: 0.632 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs RNASampler(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RNASampler(20): 0.176 Sensitivity PETfold_pre2.0(seed): 0.343 RNASampler(20): 0.035 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs RNASampler(20) Matthews Correlation Coefficient Contrafold: 0.508 RNASampler(20): 0.176 Sensitivity Contrafold: 0.481 RNASampler(20): 0.035 Positive Predictive Value Contrafold: 0.537 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs RNASampler(20) Matthews Correlation Coefficient CentroidFold: 0.470 RNASampler(20): 0.176 Sensitivity CentroidFold: 0.369 RNASampler(20): 0.035 Positive Predictive Value CentroidFold: 0.600 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs RNASampler(20) Matthews Correlation Coefficient Sfold: 0.469 RNASampler(20): 0.176 Sensitivity Sfold: 0.412 RNASampler(20): 0.035 Positive Predictive Value Sfold: 0.535 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs RNASampler(20) Matthews Correlation Coefficient MaxExpect: 0.465 RNASampler(20): 0.176 Sensitivity MaxExpect: 0.443 RNASampler(20): 0.035 Positive Predictive Value MaxExpect: 0.488 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs RNASampler(20) Matthews Correlation Coefficient ProbKnot: 0.460 RNASampler(20): 0.176 Sensitivity ProbKnot: 0.446 RNASampler(20): 0.035 Positive Predictive Value ProbKnot: 0.475 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs RNASampler(20) Matthews Correlation Coefficient UNAFold: 0.445 RNASampler(20): 0.176 Sensitivity UNAFold: 0.445 RNASampler(20): 0.035 Positive Predictive Value UNAFold: 0.446 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs RNASampler(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RNASampler(20): 0.176 Sensitivity CentroidAlifold(seed): 0.213 RNASampler(20): 0.035 Positive Predictive Value CentroidAlifold(seed): 0.901 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs RNASampler(20) Matthews Correlation Coefficient Fold: 0.437 RNASampler(20): 0.176 Sensitivity Fold: 0.432 RNASampler(20): 0.035 Positive Predictive Value Fold: 0.444 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs RNASampler(20) Matthews Correlation Coefficient RNAfold: 0.429 RNASampler(20): 0.176 Sensitivity RNAfold: 0.422 RNASampler(20): 0.035 Positive Predictive Value RNAfold: 0.437 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs RNASampler(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RNASampler(20): 0.176 Sensitivity CentroidHomfold‑LAST: 0.216 RNASampler(20): 0.035 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs RNASampler(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RNASampler(20): 0.176 Sensitivity PETfold_pre2.0(20): 0.211 RNASampler(20): 0.035 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs RNASampler(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RNASampler(20): 0.176 Sensitivity CentroidAlifold(20): 0.190 RNASampler(20): 0.035 Positive Predictive Value CentroidAlifold(20): 0.891 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs RNASampler(20) Matthews Correlation Coefficient PknotsRG: 0.386 RNASampler(20): 0.176 Sensitivity PknotsRG: 0.320 RNASampler(20): 0.035 Positive Predictive Value PknotsRG: 0.465 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs RNASampler(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 RNASampler(20): 0.176 Sensitivity MXScarna(seed): 0.196 RNASampler(20): 0.035 Positive Predictive Value MXScarna(seed): 0.753 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs RNASampler(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 RNASampler(20): 0.176 Sensitivity RNAalifold(20): 0.185 RNASampler(20): 0.035 Positive Predictive Value RNAalifold(20): 0.787 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs RNASampler(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 RNASampler(20): 0.176 Sensitivity RNAalifold(seed): 0.169 RNASampler(20): 0.035 Positive Predictive Value RNAalifold(seed): 0.835 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs RNASampler(20) Matthews Correlation Coefficient Afold: 0.358 RNASampler(20): 0.176 Sensitivity Afold: 0.295 RNASampler(20): 0.035 Positive Predictive Value Afold: 0.434 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs RNASampler(20) Matthews Correlation Coefficient MXScarna(20): 0.359 RNASampler(20): 0.176 Sensitivity MXScarna(20): 0.181 RNASampler(20): 0.035 Positive Predictive Value MXScarna(20): 0.710 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs RNASampler(20) Matthews Correlation Coefficient CRWrnafold: 0.346 RNASampler(20): 0.176 Sensitivity CRWrnafold: 0.275 RNASampler(20): 0.035 Positive Predictive Value CRWrnafold: 0.435 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs RNASampler(20) Matthews Correlation Coefficient RNAsubopt: 0.336 RNASampler(20): 0.176 Sensitivity RNAsubopt: 0.217 RNASampler(20): 0.035 Positive Predictive Value RNAsubopt: 0.521 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs RNASampler(20) Matthews Correlation Coefficient McQFold: 0.314 RNASampler(20): 0.176 Sensitivity McQFold: 0.205 RNASampler(20): 0.035 Positive Predictive Value McQFold: 0.480 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs RNASampler(20) Matthews Correlation Coefficient TurboFold(20): 0.301 RNASampler(20): 0.176 Sensitivity TurboFold(20): 0.108 RNASampler(20): 0.035 Positive Predictive Value TurboFold(20): 0.837 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs RNASampler(20) Matthews Correlation Coefficient PPfold(20): 0.298 RNASampler(20): 0.176 Sensitivity PPfold(20): 0.101 RNASampler(20): 0.035 Positive Predictive Value PPfold(20): 0.879 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs RNASampler(20) Matthews Correlation Coefficient RNAshapes: 0.295 RNASampler(20): 0.176 Sensitivity RNAshapes: 0.180 RNASampler(20): 0.035 Positive Predictive Value RNAshapes: 0.484 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs RNASampler(20) Matthews Correlation Coefficient Carnac(20): 0.288 RNASampler(20): 0.176 Sensitivity Carnac(20): 0.093 RNASampler(20): 0.035 Positive Predictive Value Carnac(20): 0.892 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs RNASampler(20) Matthews Correlation Coefficient RNASLOpt: 0.281 RNASampler(20): 0.176 Sensitivity RNASLOpt: 0.158 RNASampler(20): 0.035 Positive Predictive Value RNASLOpt: 0.502 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs RNASampler(20) Matthews Correlation Coefficient RSpredict(20): 0.270 RNASampler(20): 0.176 Sensitivity RSpredict(20): 0.124 RNASampler(20): 0.035 Positive Predictive Value RSpredict(20): 0.590 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs RNASampler(20) Matthews Correlation Coefficient Multilign(20): 0.251 RNASampler(20): 0.176 Sensitivity Multilign(20): 0.083 RNASampler(20): 0.035 Positive Predictive Value Multilign(20): 0.762 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs RNASampler(20) Matthews Correlation Coefficient RNAwolf: 0.251 RNASampler(20): 0.176 Sensitivity RNAwolf: 0.191 RNASampler(20): 0.035 Positive Predictive Value RNAwolf: 0.330 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs RNASampler(20) Matthews Correlation Coefficient Murlet(20): 0.230 RNASampler(20): 0.176 Sensitivity Murlet(20): 0.067 RNASampler(20): 0.035 Positive Predictive Value Murlet(20): 0.787 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs RNASampler(20) Matthews Correlation Coefficient Vsfold4: 0.217 RNASampler(20): 0.176 Sensitivity Vsfold4: 0.125 RNASampler(20): 0.035 Positive Predictive Value Vsfold4: 0.378 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold5 vs RNASampler(20) Matthews Correlation Coefficient Vsfold5: 0.211 RNASampler(20): 0.176 Sensitivity Vsfold5: 0.125 RNASampler(20): 0.035 Positive Predictive Value Vsfold5: 0.359 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(seed) vs RNASampler(20) Matthews Correlation Coefficient RSpredict(seed): 0.212 RNASampler(20): 0.176 Sensitivity RSpredict(seed): 0.075 RNASampler(20): 0.035 Positive Predictive Value RSpredict(seed): 0.597 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(20) vs RNASampler(20) Matthews Correlation Coefficient CMfinder(20): 0.210 RNASampler(20): 0.176 Sensitivity CMfinder(20): 0.055 RNASampler(20): 0.035 Positive Predictive Value CMfinder(20): 0.794 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 HotKnots vs RNASampler(20) Matthews Correlation Coefficient HotKnots: 0.179 RNASampler(20): 0.176 Sensitivity HotKnots: 0.051 RNASampler(20): 0.035 Positive Predictive Value HotKnots: 0.624 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 5.7281986208e-07		+ RNASampler(20) vs Cylofold Matthews Correlation Coefficient RNASampler(20): 0.176 Cylofold: 0.155 Sensitivity RNASampler(20): 0.035 Cylofold: 0.040 Positive Predictive Value RNASampler(20): 0.877 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs Pknots Matthews Correlation Coefficient RNASampler(20): 0.176 Pknots: 0.143 Sensitivity RNASampler(20): 0.035 Pknots: 0.033 Positive Predictive Value RNASampler(20): 0.877 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs Mastr(20) Matthews Correlation Coefficient RNASampler(20): 0.176 Mastr(20): 0.134 Sensitivity RNASampler(20): 0.035 Mastr(20): 0.023 Positive Predictive Value RNASampler(20): 0.877 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs Alterna Matthews Correlation Coefficient RNASampler(20): 0.176 Alterna: 0.129 Sensitivity RNASampler(20): 0.035 Alterna: 0.030 Positive Predictive Value RNASampler(20): 0.877 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs MCFold Matthews Correlation Coefficient RNASampler(20): 0.176 MCFold: 0.125 Sensitivity RNASampler(20): 0.035 MCFold: 0.036 Positive Predictive Value RNASampler(20): 0.877 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs RDfolder Matthews Correlation Coefficient RNASampler(20): 0.176 RDfolder: 0.122 Sensitivity RNASampler(20): 0.035 RDfolder: 0.025 Positive Predictive Value RNASampler(20): 0.877 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs Murlet(seed) Matthews Correlation Coefficient RNASampler(20): 0.176 Murlet(seed): 0.079 Sensitivity RNASampler(20): 0.035 Murlet(seed): 0.008 Positive Predictive Value RNASampler(20): 0.877 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs CMfinder(seed) Matthews Correlation Coefficient RNASampler(20): 0.176 CMfinder(seed): 0.080 Sensitivity RNASampler(20): 0.035 CMfinder(seed): 0.008 Positive Predictive Value RNASampler(20): 0.877 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs TurboFold(seed) Matthews Correlation Coefficient RNASampler(20): 0.176 TurboFold(seed): 0.076 Sensitivity RNASampler(20): 0.035 TurboFold(seed): 0.007 Positive Predictive Value RNASampler(20): 0.877 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs PPfold(seed) Matthews Correlation Coefficient RNASampler(20): 0.176 PPfold(seed): 0.069 Sensitivity RNASampler(20): 0.035 PPfold(seed): 0.006 Positive Predictive Value RNASampler(20): 0.877 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs Carnac(seed) Matthews Correlation Coefficient RNASampler(20): 0.176 Carnac(seed): 0.066 Sensitivity RNASampler(20): 0.035 Carnac(seed): 0.005 Positive Predictive Value RNASampler(20): 0.877 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs RNASampler(seed) Matthews Correlation Coefficient RNASampler(20): 0.176 RNASampler(seed): 0.063 Sensitivity RNASampler(20): 0.035 RNASampler(seed): 0.005 Positive Predictive Value RNASampler(20): 0.877 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs NanoFolder Matthews Correlation Coefficient RNASampler(20): 0.176 NanoFolder: 0.052 Sensitivity RNASampler(20): 0.035 NanoFolder: 0.016 Positive Predictive Value RNASampler(20): 0.877 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs Mastr(seed) Matthews Correlation Coefficient RNASampler(20): 0.176 Mastr(seed): 0.051 Sensitivity RNASampler(20): 0.035 Mastr(seed): 0.003 Positive Predictive Value RNASampler(20): 0.877 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs Multilign(seed) Matthews Correlation Coefficient RNASampler(20): 0.176 Multilign(seed): 0.043 Sensitivity RNASampler(20): 0.035 Multilign(seed): 0.003 Positive Predictive Value RNASampler(20): 0.877 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
Cylofold	1987 ContextFold vs Cylofold Matthews Correlation Coefficient ContextFold: 0.680 Cylofold: 0.155 Sensitivity ContextFold: 0.644 Cylofold: 0.040 Positive Predictive Value ContextFold: 0.718 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs Cylofold Matthews Correlation Coefficient IPknot: 0.548 Cylofold: 0.155 Sensitivity IPknot: 0.475 Cylofold: 0.040 Positive Predictive Value IPknot: 0.632 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs Cylofold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Cylofold: 0.155 Sensitivity PETfold_pre2.0(seed): 0.343 Cylofold: 0.040 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs Cylofold Matthews Correlation Coefficient Contrafold: 0.508 Cylofold: 0.155 Sensitivity Contrafold: 0.481 Cylofold: 0.040 Positive Predictive Value Contrafold: 0.537 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs Cylofold Matthews Correlation Coefficient CentroidFold: 0.470 Cylofold: 0.155 Sensitivity CentroidFold: 0.369 Cylofold: 0.040 Positive Predictive Value CentroidFold: 0.600 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs Cylofold Matthews Correlation Coefficient Sfold: 0.469 Cylofold: 0.155 Sensitivity Sfold: 0.412 Cylofold: 0.040 Positive Predictive Value Sfold: 0.535 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs Cylofold Matthews Correlation Coefficient MaxExpect: 0.465 Cylofold: 0.155 Sensitivity MaxExpect: 0.443 Cylofold: 0.040 Positive Predictive Value MaxExpect: 0.488 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs Cylofold Matthews Correlation Coefficient ProbKnot: 0.460 Cylofold: 0.155 Sensitivity ProbKnot: 0.446 Cylofold: 0.040 Positive Predictive Value ProbKnot: 0.475 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs Cylofold Matthews Correlation Coefficient UNAFold: 0.445 Cylofold: 0.155 Sensitivity UNAFold: 0.445 Cylofold: 0.040 Positive Predictive Value UNAFold: 0.446 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs Cylofold Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Cylofold: 0.155 Sensitivity CentroidAlifold(seed): 0.213 Cylofold: 0.040 Positive Predictive Value CentroidAlifold(seed): 0.901 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs Cylofold Matthews Correlation Coefficient Fold: 0.437 Cylofold: 0.155 Sensitivity Fold: 0.432 Cylofold: 0.040 Positive Predictive Value Fold: 0.444 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs Cylofold Matthews Correlation Coefficient RNAfold: 0.429 Cylofold: 0.155 Sensitivity RNAfold: 0.422 Cylofold: 0.040 Positive Predictive Value RNAfold: 0.437 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs Cylofold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Cylofold: 0.155 Sensitivity CentroidHomfold‑LAST: 0.216 Cylofold: 0.040 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs Cylofold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Cylofold: 0.155 Sensitivity PETfold_pre2.0(20): 0.211 Cylofold: 0.040 Positive Predictive Value PETfold_pre2.0(20): 0.807 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs Cylofold Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Cylofold: 0.155 Sensitivity CentroidAlifold(20): 0.190 Cylofold: 0.040 Positive Predictive Value CentroidAlifold(20): 0.891 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs Cylofold Matthews Correlation Coefficient PknotsRG: 0.386 Cylofold: 0.155 Sensitivity PknotsRG: 0.320 Cylofold: 0.040 Positive Predictive Value PknotsRG: 0.465 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs Cylofold Matthews Correlation Coefficient MXScarna(seed): 0.385 Cylofold: 0.155 Sensitivity MXScarna(seed): 0.196 Cylofold: 0.040 Positive Predictive Value MXScarna(seed): 0.753 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs Cylofold Matthews Correlation Coefficient RNAalifold(20): 0.381 Cylofold: 0.155 Sensitivity RNAalifold(20): 0.185 Cylofold: 0.040 Positive Predictive Value RNAalifold(20): 0.787 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs Cylofold Matthews Correlation Coefficient RNAalifold(seed): 0.375 Cylofold: 0.155 Sensitivity RNAalifold(seed): 0.169 Cylofold: 0.040 Positive Predictive Value RNAalifold(seed): 0.835 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs Cylofold Matthews Correlation Coefficient Afold: 0.358 Cylofold: 0.155 Sensitivity Afold: 0.295 Cylofold: 0.040 Positive Predictive Value Afold: 0.434 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs Cylofold Matthews Correlation Coefficient MXScarna(20): 0.359 Cylofold: 0.155 Sensitivity MXScarna(20): 0.181 Cylofold: 0.040 Positive Predictive Value MXScarna(20): 0.710 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs Cylofold Matthews Correlation Coefficient CRWrnafold: 0.346 Cylofold: 0.155 Sensitivity CRWrnafold: 0.275 Cylofold: 0.040 Positive Predictive Value CRWrnafold: 0.435 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs Cylofold Matthews Correlation Coefficient RNAsubopt: 0.336 Cylofold: 0.155 Sensitivity RNAsubopt: 0.217 Cylofold: 0.040 Positive Predictive Value RNAsubopt: 0.521 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs Cylofold Matthews Correlation Coefficient McQFold: 0.314 Cylofold: 0.155 Sensitivity McQFold: 0.205 Cylofold: 0.040 Positive Predictive Value McQFold: 0.480 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs Cylofold Matthews Correlation Coefficient TurboFold(20): 0.301 Cylofold: 0.155 Sensitivity TurboFold(20): 0.108 Cylofold: 0.040 Positive Predictive Value TurboFold(20): 0.837 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs Cylofold Matthews Correlation Coefficient PPfold(20): 0.298 Cylofold: 0.155 Sensitivity PPfold(20): 0.101 Cylofold: 0.040 Positive Predictive Value PPfold(20): 0.879 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs Cylofold Matthews Correlation Coefficient RNAshapes: 0.295 Cylofold: 0.155 Sensitivity RNAshapes: 0.180 Cylofold: 0.040 Positive Predictive Value RNAshapes: 0.484 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs Cylofold Matthews Correlation Coefficient Carnac(20): 0.288 Cylofold: 0.155 Sensitivity Carnac(20): 0.093 Cylofold: 0.040 Positive Predictive Value Carnac(20): 0.892 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs Cylofold Matthews Correlation Coefficient RNASLOpt: 0.281 Cylofold: 0.155 Sensitivity RNASLOpt: 0.158 Cylofold: 0.040 Positive Predictive Value RNASLOpt: 0.502 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs Cylofold Matthews Correlation Coefficient RSpredict(20): 0.270 Cylofold: 0.155 Sensitivity RSpredict(20): 0.124 Cylofold: 0.040 Positive Predictive Value RSpredict(20): 0.590 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs Cylofold Matthews Correlation Coefficient Multilign(20): 0.251 Cylofold: 0.155 Sensitivity Multilign(20): 0.083 Cylofold: 0.040 Positive Predictive Value Multilign(20): 0.762 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs Cylofold Matthews Correlation Coefficient RNAwolf: 0.251 Cylofold: 0.155 Sensitivity RNAwolf: 0.191 Cylofold: 0.040 Positive Predictive Value RNAwolf: 0.330 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs Cylofold Matthews Correlation Coefficient Murlet(20): 0.230 Cylofold: 0.155 Sensitivity Murlet(20): 0.067 Cylofold: 0.040 Positive Predictive Value Murlet(20): 0.787 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs Cylofold Matthews Correlation Coefficient Vsfold4: 0.217 Cylofold: 0.155 Sensitivity Vsfold4: 0.125 Cylofold: 0.040 Positive Predictive Value Vsfold4: 0.378 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold5 vs Cylofold Matthews Correlation Coefficient Vsfold5: 0.211 Cylofold: 0.155 Sensitivity Vsfold5: 0.125 Cylofold: 0.040 Positive Predictive Value Vsfold5: 0.359 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(seed) vs Cylofold Matthews Correlation Coefficient RSpredict(seed): 0.212 Cylofold: 0.155 Sensitivity RSpredict(seed): 0.075 Cylofold: 0.040 Positive Predictive Value RSpredict(seed): 0.597 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(20) vs Cylofold Matthews Correlation Coefficient CMfinder(20): 0.210 Cylofold: 0.155 Sensitivity CMfinder(20): 0.055 Cylofold: 0.040 Positive Predictive Value CMfinder(20): 0.794 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 HotKnots vs Cylofold Matthews Correlation Coefficient HotKnots: 0.179 Cylofold: 0.155 Sensitivity HotKnots: 0.051 Cylofold: 0.040 Positive Predictive Value HotKnots: 0.624 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASampler(20) vs Cylofold Matthews Correlation Coefficient RNASampler(20): 0.176 Cylofold: 0.155 Sensitivity RNASampler(20): 0.035 Cylofold: 0.040 Positive Predictive Value RNASampler(20): 0.877 Cylofold: 0.606 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ Cylofold vs Pknots Matthews Correlation Coefficient Cylofold: 0.155 Pknots: 0.143 Sensitivity Cylofold: 0.040 Pknots: 0.033 Positive Predictive Value Cylofold: 0.606 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs Mastr(20) Matthews Correlation Coefficient Cylofold: 0.155 Mastr(20): 0.134 Sensitivity Cylofold: 0.040 Mastr(20): 0.023 Positive Predictive Value Cylofold: 0.606 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs Alterna Matthews Correlation Coefficient Cylofold: 0.155 Alterna: 0.129 Sensitivity Cylofold: 0.040 Alterna: 0.030 Positive Predictive Value Cylofold: 0.606 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs MCFold Matthews Correlation Coefficient Cylofold: 0.155 MCFold: 0.125 Sensitivity Cylofold: 0.040 MCFold: 0.036 Positive Predictive Value Cylofold: 0.606 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs RDfolder Matthews Correlation Coefficient Cylofold: 0.155 RDfolder: 0.122 Sensitivity Cylofold: 0.040 RDfolder: 0.025 Positive Predictive Value Cylofold: 0.606 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs Murlet(seed) Matthews Correlation Coefficient Cylofold: 0.155 Murlet(seed): 0.079 Sensitivity Cylofold: 0.040 Murlet(seed): 0.008 Positive Predictive Value Cylofold: 0.606 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs CMfinder(seed) Matthews Correlation Coefficient Cylofold: 0.155 CMfinder(seed): 0.080 Sensitivity Cylofold: 0.040 CMfinder(seed): 0.008 Positive Predictive Value Cylofold: 0.606 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs TurboFold(seed) Matthews Correlation Coefficient Cylofold: 0.155 TurboFold(seed): 0.076 Sensitivity Cylofold: 0.040 TurboFold(seed): 0.007 Positive Predictive Value Cylofold: 0.606 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs PPfold(seed) Matthews Correlation Coefficient Cylofold: 0.155 PPfold(seed): 0.069 Sensitivity Cylofold: 0.040 PPfold(seed): 0.006 Positive Predictive Value Cylofold: 0.606 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs Carnac(seed) Matthews Correlation Coefficient Cylofold: 0.155 Carnac(seed): 0.066 Sensitivity Cylofold: 0.040 Carnac(seed): 0.005 Positive Predictive Value Cylofold: 0.606 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs RNASampler(seed) Matthews Correlation Coefficient Cylofold: 0.155 RNASampler(seed): 0.063 Sensitivity Cylofold: 0.040 RNASampler(seed): 0.005 Positive Predictive Value Cylofold: 0.606 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs NanoFolder Matthews Correlation Coefficient Cylofold: 0.155 NanoFolder: 0.052 Sensitivity Cylofold: 0.040 NanoFolder: 0.016 Positive Predictive Value Cylofold: 0.606 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs Mastr(seed) Matthews Correlation Coefficient Cylofold: 0.155 Mastr(seed): 0.051 Sensitivity Cylofold: 0.040 Mastr(seed): 0.003 Positive Predictive Value Cylofold: 0.606 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs Multilign(seed) Matthews Correlation Coefficient Cylofold: 0.155 Multilign(seed): 0.043 Sensitivity Cylofold: 0.040 Multilign(seed): 0.003 Positive Predictive Value Cylofold: 0.606 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
Pknots	1987 ContextFold vs Pknots Matthews Correlation Coefficient ContextFold: 0.680 Pknots: 0.143 Sensitivity ContextFold: 0.644 Pknots: 0.033 Positive Predictive Value ContextFold: 0.718 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs Pknots Matthews Correlation Coefficient IPknot: 0.548 Pknots: 0.143 Sensitivity IPknot: 0.475 Pknots: 0.033 Positive Predictive Value IPknot: 0.632 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs Pknots Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Pknots: 0.143 Sensitivity PETfold_pre2.0(seed): 0.343 Pknots: 0.033 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs Pknots Matthews Correlation Coefficient Contrafold: 0.508 Pknots: 0.143 Sensitivity Contrafold: 0.481 Pknots: 0.033 Positive Predictive Value Contrafold: 0.537 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs Pknots Matthews Correlation Coefficient CentroidFold: 0.470 Pknots: 0.143 Sensitivity CentroidFold: 0.369 Pknots: 0.033 Positive Predictive Value CentroidFold: 0.600 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs Pknots Matthews Correlation Coefficient Sfold: 0.469 Pknots: 0.143 Sensitivity Sfold: 0.412 Pknots: 0.033 Positive Predictive Value Sfold: 0.535 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs Pknots Matthews Correlation Coefficient MaxExpect: 0.465 Pknots: 0.143 Sensitivity MaxExpect: 0.443 Pknots: 0.033 Positive Predictive Value MaxExpect: 0.488 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs Pknots Matthews Correlation Coefficient ProbKnot: 0.460 Pknots: 0.143 Sensitivity ProbKnot: 0.446 Pknots: 0.033 Positive Predictive Value ProbKnot: 0.475 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs Pknots Matthews Correlation Coefficient UNAFold: 0.445 Pknots: 0.143 Sensitivity UNAFold: 0.445 Pknots: 0.033 Positive Predictive Value UNAFold: 0.446 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs Pknots Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Pknots: 0.143 Sensitivity CentroidAlifold(seed): 0.213 Pknots: 0.033 Positive Predictive Value CentroidAlifold(seed): 0.901 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs Pknots Matthews Correlation Coefficient Fold: 0.437 Pknots: 0.143 Sensitivity Fold: 0.432 Pknots: 0.033 Positive Predictive Value Fold: 0.444 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs Pknots Matthews Correlation Coefficient RNAfold: 0.429 Pknots: 0.143 Sensitivity RNAfold: 0.422 Pknots: 0.033 Positive Predictive Value RNAfold: 0.437 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs Pknots Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Pknots: 0.143 Sensitivity CentroidHomfold‑LAST: 0.216 Pknots: 0.033 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs Pknots Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Pknots: 0.143 Sensitivity PETfold_pre2.0(20): 0.211 Pknots: 0.033 Positive Predictive Value PETfold_pre2.0(20): 0.807 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs Pknots Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Pknots: 0.143 Sensitivity CentroidAlifold(20): 0.190 Pknots: 0.033 Positive Predictive Value CentroidAlifold(20): 0.891 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs Pknots Matthews Correlation Coefficient PknotsRG: 0.386 Pknots: 0.143 Sensitivity PknotsRG: 0.320 Pknots: 0.033 Positive Predictive Value PknotsRG: 0.465 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs Pknots Matthews Correlation Coefficient MXScarna(seed): 0.385 Pknots: 0.143 Sensitivity MXScarna(seed): 0.196 Pknots: 0.033 Positive Predictive Value MXScarna(seed): 0.753 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs Pknots Matthews Correlation Coefficient RNAalifold(20): 0.381 Pknots: 0.143 Sensitivity RNAalifold(20): 0.185 Pknots: 0.033 Positive Predictive Value RNAalifold(20): 0.787 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs Pknots Matthews Correlation Coefficient RNAalifold(seed): 0.375 Pknots: 0.143 Sensitivity RNAalifold(seed): 0.169 Pknots: 0.033 Positive Predictive Value RNAalifold(seed): 0.835 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs Pknots Matthews Correlation Coefficient Afold: 0.358 Pknots: 0.143 Sensitivity Afold: 0.295 Pknots: 0.033 Positive Predictive Value Afold: 0.434 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs Pknots Matthews Correlation Coefficient MXScarna(20): 0.359 Pknots: 0.143 Sensitivity MXScarna(20): 0.181 Pknots: 0.033 Positive Predictive Value MXScarna(20): 0.710 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs Pknots Matthews Correlation Coefficient CRWrnafold: 0.346 Pknots: 0.143 Sensitivity CRWrnafold: 0.275 Pknots: 0.033 Positive Predictive Value CRWrnafold: 0.435 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs Pknots Matthews Correlation Coefficient RNAsubopt: 0.336 Pknots: 0.143 Sensitivity RNAsubopt: 0.217 Pknots: 0.033 Positive Predictive Value RNAsubopt: 0.521 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs Pknots Matthews Correlation Coefficient McQFold: 0.314 Pknots: 0.143 Sensitivity McQFold: 0.205 Pknots: 0.033 Positive Predictive Value McQFold: 0.480 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs Pknots Matthews Correlation Coefficient TurboFold(20): 0.301 Pknots: 0.143 Sensitivity TurboFold(20): 0.108 Pknots: 0.033 Positive Predictive Value TurboFold(20): 0.837 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs Pknots Matthews Correlation Coefficient PPfold(20): 0.298 Pknots: 0.143 Sensitivity PPfold(20): 0.101 Pknots: 0.033 Positive Predictive Value PPfold(20): 0.879 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs Pknots Matthews Correlation Coefficient RNAshapes: 0.295 Pknots: 0.143 Sensitivity RNAshapes: 0.180 Pknots: 0.033 Positive Predictive Value RNAshapes: 0.484 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs Pknots Matthews Correlation Coefficient Carnac(20): 0.288 Pknots: 0.143 Sensitivity Carnac(20): 0.093 Pknots: 0.033 Positive Predictive Value Carnac(20): 0.892 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs Pknots Matthews Correlation Coefficient RNASLOpt: 0.281 Pknots: 0.143 Sensitivity RNASLOpt: 0.158 Pknots: 0.033 Positive Predictive Value RNASLOpt: 0.502 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs Pknots Matthews Correlation Coefficient RSpredict(20): 0.270 Pknots: 0.143 Sensitivity RSpredict(20): 0.124 Pknots: 0.033 Positive Predictive Value RSpredict(20): 0.590 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs Pknots Matthews Correlation Coefficient Multilign(20): 0.251 Pknots: 0.143 Sensitivity Multilign(20): 0.083 Pknots: 0.033 Positive Predictive Value Multilign(20): 0.762 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs Pknots Matthews Correlation Coefficient RNAwolf: 0.251 Pknots: 0.143 Sensitivity RNAwolf: 0.191 Pknots: 0.033 Positive Predictive Value RNAwolf: 0.330 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs Pknots Matthews Correlation Coefficient Murlet(20): 0.230 Pknots: 0.143 Sensitivity Murlet(20): 0.067 Pknots: 0.033 Positive Predictive Value Murlet(20): 0.787 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs Pknots Matthews Correlation Coefficient Vsfold4: 0.217 Pknots: 0.143 Sensitivity Vsfold4: 0.125 Pknots: 0.033 Positive Predictive Value Vsfold4: 0.378 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold5 vs Pknots Matthews Correlation Coefficient Vsfold5: 0.211 Pknots: 0.143 Sensitivity Vsfold5: 0.125 Pknots: 0.033 Positive Predictive Value Vsfold5: 0.359 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(seed) vs Pknots Matthews Correlation Coefficient RSpredict(seed): 0.212 Pknots: 0.143 Sensitivity RSpredict(seed): 0.075 Pknots: 0.033 Positive Predictive Value RSpredict(seed): 0.597 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(20) vs Pknots Matthews Correlation Coefficient CMfinder(20): 0.210 Pknots: 0.143 Sensitivity CMfinder(20): 0.055 Pknots: 0.033 Positive Predictive Value CMfinder(20): 0.794 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 HotKnots vs Pknots Matthews Correlation Coefficient HotKnots: 0.179 Pknots: 0.143 Sensitivity HotKnots: 0.051 Pknots: 0.033 Positive Predictive Value HotKnots: 0.624 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASampler(20) vs Pknots Matthews Correlation Coefficient RNASampler(20): 0.176 Pknots: 0.143 Sensitivity RNASampler(20): 0.035 Pknots: 0.033 Positive Predictive Value RNASampler(20): 0.877 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Cylofold vs Pknots Matthews Correlation Coefficient Cylofold: 0.155 Pknots: 0.143 Sensitivity Cylofold: 0.040 Pknots: 0.033 Positive Predictive Value Cylofold: 0.606 Pknots: 0.624 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ Pknots vs Mastr(20) Matthews Correlation Coefficient Pknots: 0.143 Mastr(20): 0.134 Sensitivity Pknots: 0.033 Mastr(20): 0.023 Positive Predictive Value Pknots: 0.624 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs Alterna Matthews Correlation Coefficient Pknots: 0.143 Alterna: 0.129 Sensitivity Pknots: 0.033 Alterna: 0.030 Positive Predictive Value Pknots: 0.624 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs MCFold Matthews Correlation Coefficient Pknots: 0.143 MCFold: 0.125 Sensitivity Pknots: 0.033 MCFold: 0.036 Positive Predictive Value Pknots: 0.624 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs RDfolder Matthews Correlation Coefficient Pknots: 0.143 RDfolder: 0.122 Sensitivity Pknots: 0.033 RDfolder: 0.025 Positive Predictive Value Pknots: 0.624 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs Murlet(seed) Matthews Correlation Coefficient Pknots: 0.143 Murlet(seed): 0.079 Sensitivity Pknots: 0.033 Murlet(seed): 0.008 Positive Predictive Value Pknots: 0.624 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs CMfinder(seed) Matthews Correlation Coefficient Pknots: 0.143 CMfinder(seed): 0.080 Sensitivity Pknots: 0.033 CMfinder(seed): 0.008 Positive Predictive Value Pknots: 0.624 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs TurboFold(seed) Matthews Correlation Coefficient Pknots: 0.143 TurboFold(seed): 0.076 Sensitivity Pknots: 0.033 TurboFold(seed): 0.007 Positive Predictive Value Pknots: 0.624 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs PPfold(seed) Matthews Correlation Coefficient Pknots: 0.143 PPfold(seed): 0.069 Sensitivity Pknots: 0.033 PPfold(seed): 0.006 Positive Predictive Value Pknots: 0.624 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs Carnac(seed) Matthews Correlation Coefficient Pknots: 0.143 Carnac(seed): 0.066 Sensitivity Pknots: 0.033 Carnac(seed): 0.005 Positive Predictive Value Pknots: 0.624 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs RNASampler(seed) Matthews Correlation Coefficient Pknots: 0.143 RNASampler(seed): 0.063 Sensitivity Pknots: 0.033 RNASampler(seed): 0.005 Positive Predictive Value Pknots: 0.624 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs NanoFolder Matthews Correlation Coefficient Pknots: 0.143 NanoFolder: 0.052 Sensitivity Pknots: 0.033 NanoFolder: 0.016 Positive Predictive Value Pknots: 0.624 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs Mastr(seed) Matthews Correlation Coefficient Pknots: 0.143 Mastr(seed): 0.051 Sensitivity Pknots: 0.033 Mastr(seed): 0.003 Positive Predictive Value Pknots: 0.624 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs Multilign(seed) Matthews Correlation Coefficient Pknots: 0.143 Multilign(seed): 0.043 Sensitivity Pknots: 0.033 Multilign(seed): 0.003 Positive Predictive Value Pknots: 0.624 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
Mastr(20)	1987 ContextFold vs Mastr(20) Matthews Correlation Coefficient ContextFold: 0.680 Mastr(20): 0.134 Sensitivity ContextFold: 0.644 Mastr(20): 0.023 Positive Predictive Value ContextFold: 0.718 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs Mastr(20) Matthews Correlation Coefficient IPknot: 0.548 Mastr(20): 0.134 Sensitivity IPknot: 0.475 Mastr(20): 0.023 Positive Predictive Value IPknot: 0.632 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs Mastr(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Mastr(20): 0.134 Sensitivity PETfold_pre2.0(seed): 0.343 Mastr(20): 0.023 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs Mastr(20) Matthews Correlation Coefficient Contrafold: 0.508 Mastr(20): 0.134 Sensitivity Contrafold: 0.481 Mastr(20): 0.023 Positive Predictive Value Contrafold: 0.537 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs Mastr(20) Matthews Correlation Coefficient CentroidFold: 0.470 Mastr(20): 0.134 Sensitivity CentroidFold: 0.369 Mastr(20): 0.023 Positive Predictive Value CentroidFold: 0.600 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs Mastr(20) Matthews Correlation Coefficient Sfold: 0.469 Mastr(20): 0.134 Sensitivity Sfold: 0.412 Mastr(20): 0.023 Positive Predictive Value Sfold: 0.535 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs Mastr(20) Matthews Correlation Coefficient MaxExpect: 0.465 Mastr(20): 0.134 Sensitivity MaxExpect: 0.443 Mastr(20): 0.023 Positive Predictive Value MaxExpect: 0.488 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs Mastr(20) Matthews Correlation Coefficient ProbKnot: 0.460 Mastr(20): 0.134 Sensitivity ProbKnot: 0.446 Mastr(20): 0.023 Positive Predictive Value ProbKnot: 0.475 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs Mastr(20) Matthews Correlation Coefficient UNAFold: 0.445 Mastr(20): 0.134 Sensitivity UNAFold: 0.445 Mastr(20): 0.023 Positive Predictive Value UNAFold: 0.446 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs Mastr(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Mastr(20): 0.134 Sensitivity CentroidAlifold(seed): 0.213 Mastr(20): 0.023 Positive Predictive Value CentroidAlifold(seed): 0.901 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs Mastr(20) Matthews Correlation Coefficient Fold: 0.437 Mastr(20): 0.134 Sensitivity Fold: 0.432 Mastr(20): 0.023 Positive Predictive Value Fold: 0.444 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs Mastr(20) Matthews Correlation Coefficient RNAfold: 0.429 Mastr(20): 0.134 Sensitivity RNAfold: 0.422 Mastr(20): 0.023 Positive Predictive Value RNAfold: 0.437 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs Mastr(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Mastr(20): 0.134 Sensitivity CentroidHomfold‑LAST: 0.216 Mastr(20): 0.023 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs Mastr(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Mastr(20): 0.134 Sensitivity PETfold_pre2.0(20): 0.211 Mastr(20): 0.023 Positive Predictive Value PETfold_pre2.0(20): 0.807 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs Mastr(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Mastr(20): 0.134 Sensitivity CentroidAlifold(20): 0.190 Mastr(20): 0.023 Positive Predictive Value CentroidAlifold(20): 0.891 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs Mastr(20) Matthews Correlation Coefficient PknotsRG: 0.386 Mastr(20): 0.134 Sensitivity PknotsRG: 0.320 Mastr(20): 0.023 Positive Predictive Value PknotsRG: 0.465 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs Mastr(20) Matthews Correlation Coefficient MXScarna(seed): 0.385 Mastr(20): 0.134 Sensitivity MXScarna(seed): 0.196 Mastr(20): 0.023 Positive Predictive Value MXScarna(seed): 0.753 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs Mastr(20) Matthews Correlation Coefficient RNAalifold(20): 0.381 Mastr(20): 0.134 Sensitivity RNAalifold(20): 0.185 Mastr(20): 0.023 Positive Predictive Value RNAalifold(20): 0.787 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs Mastr(20) Matthews Correlation Coefficient RNAalifold(seed): 0.375 Mastr(20): 0.134 Sensitivity RNAalifold(seed): 0.169 Mastr(20): 0.023 Positive Predictive Value RNAalifold(seed): 0.835 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs Mastr(20) Matthews Correlation Coefficient Afold: 0.358 Mastr(20): 0.134 Sensitivity Afold: 0.295 Mastr(20): 0.023 Positive Predictive Value Afold: 0.434 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs Mastr(20) Matthews Correlation Coefficient MXScarna(20): 0.359 Mastr(20): 0.134 Sensitivity MXScarna(20): 0.181 Mastr(20): 0.023 Positive Predictive Value MXScarna(20): 0.710 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs Mastr(20) Matthews Correlation Coefficient CRWrnafold: 0.346 Mastr(20): 0.134 Sensitivity CRWrnafold: 0.275 Mastr(20): 0.023 Positive Predictive Value CRWrnafold: 0.435 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs Mastr(20) Matthews Correlation Coefficient RNAsubopt: 0.336 Mastr(20): 0.134 Sensitivity RNAsubopt: 0.217 Mastr(20): 0.023 Positive Predictive Value RNAsubopt: 0.521 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs Mastr(20) Matthews Correlation Coefficient McQFold: 0.314 Mastr(20): 0.134 Sensitivity McQFold: 0.205 Mastr(20): 0.023 Positive Predictive Value McQFold: 0.480 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs Mastr(20) Matthews Correlation Coefficient TurboFold(20): 0.301 Mastr(20): 0.134 Sensitivity TurboFold(20): 0.108 Mastr(20): 0.023 Positive Predictive Value TurboFold(20): 0.837 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs Mastr(20) Matthews Correlation Coefficient PPfold(20): 0.298 Mastr(20): 0.134 Sensitivity PPfold(20): 0.101 Mastr(20): 0.023 Positive Predictive Value PPfold(20): 0.879 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs Mastr(20) Matthews Correlation Coefficient RNAshapes: 0.295 Mastr(20): 0.134 Sensitivity RNAshapes: 0.180 Mastr(20): 0.023 Positive Predictive Value RNAshapes: 0.484 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs Mastr(20) Matthews Correlation Coefficient Carnac(20): 0.288 Mastr(20): 0.134 Sensitivity Carnac(20): 0.093 Mastr(20): 0.023 Positive Predictive Value Carnac(20): 0.892 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs Mastr(20) Matthews Correlation Coefficient RNASLOpt: 0.281 Mastr(20): 0.134 Sensitivity RNASLOpt: 0.158 Mastr(20): 0.023 Positive Predictive Value RNASLOpt: 0.502 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs Mastr(20) Matthews Correlation Coefficient RSpredict(20): 0.270 Mastr(20): 0.134 Sensitivity RSpredict(20): 0.124 Mastr(20): 0.023 Positive Predictive Value RSpredict(20): 0.590 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs Mastr(20) Matthews Correlation Coefficient Multilign(20): 0.251 Mastr(20): 0.134 Sensitivity Multilign(20): 0.083 Mastr(20): 0.023 Positive Predictive Value Multilign(20): 0.762 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs Mastr(20) Matthews Correlation Coefficient RNAwolf: 0.251 Mastr(20): 0.134 Sensitivity RNAwolf: 0.191 Mastr(20): 0.023 Positive Predictive Value RNAwolf: 0.330 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs Mastr(20) Matthews Correlation Coefficient Murlet(20): 0.230 Mastr(20): 0.134 Sensitivity Murlet(20): 0.067 Mastr(20): 0.023 Positive Predictive Value Murlet(20): 0.787 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs Mastr(20) Matthews Correlation Coefficient Vsfold4: 0.217 Mastr(20): 0.134 Sensitivity Vsfold4: 0.125 Mastr(20): 0.023 Positive Predictive Value Vsfold4: 0.378 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold5 vs Mastr(20) Matthews Correlation Coefficient Vsfold5: 0.211 Mastr(20): 0.134 Sensitivity Vsfold5: 0.125 Mastr(20): 0.023 Positive Predictive Value Vsfold5: 0.359 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(seed) vs Mastr(20) Matthews Correlation Coefficient RSpredict(seed): 0.212 Mastr(20): 0.134 Sensitivity RSpredict(seed): 0.075 Mastr(20): 0.023 Positive Predictive Value RSpredict(seed): 0.597 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(20) vs Mastr(20) Matthews Correlation Coefficient CMfinder(20): 0.210 Mastr(20): 0.134 Sensitivity CMfinder(20): 0.055 Mastr(20): 0.023 Positive Predictive Value CMfinder(20): 0.794 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 HotKnots vs Mastr(20) Matthews Correlation Coefficient HotKnots: 0.179 Mastr(20): 0.134 Sensitivity HotKnots: 0.051 Mastr(20): 0.023 Positive Predictive Value HotKnots: 0.624 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASampler(20) vs Mastr(20) Matthews Correlation Coefficient RNASampler(20): 0.176 Mastr(20): 0.134 Sensitivity RNASampler(20): 0.035 Mastr(20): 0.023 Positive Predictive Value RNASampler(20): 0.877 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Cylofold vs Mastr(20) Matthews Correlation Coefficient Cylofold: 0.155 Mastr(20): 0.134 Sensitivity Cylofold: 0.040 Mastr(20): 0.023 Positive Predictive Value Cylofold: 0.606 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Pknots vs Mastr(20) Matthews Correlation Coefficient Pknots: 0.143 Mastr(20): 0.134 Sensitivity Pknots: 0.033 Mastr(20): 0.023 Positive Predictive Value Pknots: 0.624 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ Mastr(20) vs Alterna Matthews Correlation Coefficient Mastr(20): 0.134 Alterna: 0.129 Sensitivity Mastr(20): 0.023 Alterna: 0.030 Positive Predictive Value Mastr(20): 0.790 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs MCFold Matthews Correlation Coefficient Mastr(20): 0.134 MCFold: 0.125 Sensitivity Mastr(20): 0.023 MCFold: 0.036 Positive Predictive Value Mastr(20): 0.790 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs RDfolder Matthews Correlation Coefficient Mastr(20): 0.134 RDfolder: 0.122 Sensitivity Mastr(20): 0.023 RDfolder: 0.025 Positive Predictive Value Mastr(20): 0.790 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs Murlet(seed) Matthews Correlation Coefficient Mastr(20): 0.134 Murlet(seed): 0.079 Sensitivity Mastr(20): 0.023 Murlet(seed): 0.008 Positive Predictive Value Mastr(20): 0.790 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs CMfinder(seed) Matthews Correlation Coefficient Mastr(20): 0.134 CMfinder(seed): 0.080 Sensitivity Mastr(20): 0.023 CMfinder(seed): 0.008 Positive Predictive Value Mastr(20): 0.790 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs TurboFold(seed) Matthews Correlation Coefficient Mastr(20): 0.134 TurboFold(seed): 0.076 Sensitivity Mastr(20): 0.023 TurboFold(seed): 0.007 Positive Predictive Value Mastr(20): 0.790 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs PPfold(seed) Matthews Correlation Coefficient Mastr(20): 0.134 PPfold(seed): 0.069 Sensitivity Mastr(20): 0.023 PPfold(seed): 0.006 Positive Predictive Value Mastr(20): 0.790 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs Carnac(seed) Matthews Correlation Coefficient Mastr(20): 0.134 Carnac(seed): 0.066 Sensitivity Mastr(20): 0.023 Carnac(seed): 0.005 Positive Predictive Value Mastr(20): 0.790 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs RNASampler(seed) Matthews Correlation Coefficient Mastr(20): 0.134 RNASampler(seed): 0.063 Sensitivity Mastr(20): 0.023 RNASampler(seed): 0.005 Positive Predictive Value Mastr(20): 0.790 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs NanoFolder Matthews Correlation Coefficient Mastr(20): 0.134 NanoFolder: 0.052 Sensitivity Mastr(20): 0.023 NanoFolder: 0.016 Positive Predictive Value Mastr(20): 0.790 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs Mastr(seed) Matthews Correlation Coefficient Mastr(20): 0.134 Mastr(seed): 0.051 Sensitivity Mastr(20): 0.023 Mastr(seed): 0.003 Positive Predictive Value Mastr(20): 0.790 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs Multilign(seed) Matthews Correlation Coefficient Mastr(20): 0.134 Multilign(seed): 0.043 Sensitivity Mastr(20): 0.023 Multilign(seed): 0.003 Positive Predictive Value Mastr(20): 0.790 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
Alterna	1987 ContextFold vs Alterna Matthews Correlation Coefficient ContextFold: 0.680 Alterna: 0.129 Sensitivity ContextFold: 0.644 Alterna: 0.030 Positive Predictive Value ContextFold: 0.718 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs Alterna Matthews Correlation Coefficient IPknot: 0.548 Alterna: 0.129 Sensitivity IPknot: 0.475 Alterna: 0.030 Positive Predictive Value IPknot: 0.632 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs Alterna Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Alterna: 0.129 Sensitivity PETfold_pre2.0(seed): 0.343 Alterna: 0.030 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs Alterna Matthews Correlation Coefficient Contrafold: 0.508 Alterna: 0.129 Sensitivity Contrafold: 0.481 Alterna: 0.030 Positive Predictive Value Contrafold: 0.537 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs Alterna Matthews Correlation Coefficient CentroidFold: 0.470 Alterna: 0.129 Sensitivity CentroidFold: 0.369 Alterna: 0.030 Positive Predictive Value CentroidFold: 0.600 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs Alterna Matthews Correlation Coefficient Sfold: 0.469 Alterna: 0.129 Sensitivity Sfold: 0.412 Alterna: 0.030 Positive Predictive Value Sfold: 0.535 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs Alterna Matthews Correlation Coefficient MaxExpect: 0.465 Alterna: 0.129 Sensitivity MaxExpect: 0.443 Alterna: 0.030 Positive Predictive Value MaxExpect: 0.488 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs Alterna Matthews Correlation Coefficient ProbKnot: 0.460 Alterna: 0.129 Sensitivity ProbKnot: 0.446 Alterna: 0.030 Positive Predictive Value ProbKnot: 0.475 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs Alterna Matthews Correlation Coefficient UNAFold: 0.445 Alterna: 0.129 Sensitivity UNAFold: 0.445 Alterna: 0.030 Positive Predictive Value UNAFold: 0.446 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs Alterna Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Alterna: 0.129 Sensitivity CentroidAlifold(seed): 0.213 Alterna: 0.030 Positive Predictive Value CentroidAlifold(seed): 0.901 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs Alterna Matthews Correlation Coefficient Fold: 0.437 Alterna: 0.129 Sensitivity Fold: 0.432 Alterna: 0.030 Positive Predictive Value Fold: 0.444 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs Alterna Matthews Correlation Coefficient RNAfold: 0.429 Alterna: 0.129 Sensitivity RNAfold: 0.422 Alterna: 0.030 Positive Predictive Value RNAfold: 0.437 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs Alterna Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Alterna: 0.129 Sensitivity CentroidHomfold‑LAST: 0.216 Alterna: 0.030 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs Alterna Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Alterna: 0.129 Sensitivity PETfold_pre2.0(20): 0.211 Alterna: 0.030 Positive Predictive Value PETfold_pre2.0(20): 0.807 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs Alterna Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Alterna: 0.129 Sensitivity CentroidAlifold(20): 0.190 Alterna: 0.030 Positive Predictive Value CentroidAlifold(20): 0.891 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs Alterna Matthews Correlation Coefficient PknotsRG: 0.386 Alterna: 0.129 Sensitivity PknotsRG: 0.320 Alterna: 0.030 Positive Predictive Value PknotsRG: 0.465 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs Alterna Matthews Correlation Coefficient MXScarna(seed): 0.385 Alterna: 0.129 Sensitivity MXScarna(seed): 0.196 Alterna: 0.030 Positive Predictive Value MXScarna(seed): 0.753 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs Alterna Matthews Correlation Coefficient RNAalifold(20): 0.381 Alterna: 0.129 Sensitivity RNAalifold(20): 0.185 Alterna: 0.030 Positive Predictive Value RNAalifold(20): 0.787 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs Alterna Matthews Correlation Coefficient RNAalifold(seed): 0.375 Alterna: 0.129 Sensitivity RNAalifold(seed): 0.169 Alterna: 0.030 Positive Predictive Value RNAalifold(seed): 0.835 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs Alterna Matthews Correlation Coefficient Afold: 0.358 Alterna: 0.129 Sensitivity Afold: 0.295 Alterna: 0.030 Positive Predictive Value Afold: 0.434 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs Alterna Matthews Correlation Coefficient MXScarna(20): 0.359 Alterna: 0.129 Sensitivity MXScarna(20): 0.181 Alterna: 0.030 Positive Predictive Value MXScarna(20): 0.710 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs Alterna Matthews Correlation Coefficient CRWrnafold: 0.346 Alterna: 0.129 Sensitivity CRWrnafold: 0.275 Alterna: 0.030 Positive Predictive Value CRWrnafold: 0.435 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs Alterna Matthews Correlation Coefficient RNAsubopt: 0.336 Alterna: 0.129 Sensitivity RNAsubopt: 0.217 Alterna: 0.030 Positive Predictive Value RNAsubopt: 0.521 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs Alterna Matthews Correlation Coefficient McQFold: 0.314 Alterna: 0.129 Sensitivity McQFold: 0.205 Alterna: 0.030 Positive Predictive Value McQFold: 0.480 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs Alterna Matthews Correlation Coefficient TurboFold(20): 0.301 Alterna: 0.129 Sensitivity TurboFold(20): 0.108 Alterna: 0.030 Positive Predictive Value TurboFold(20): 0.837 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs Alterna Matthews Correlation Coefficient PPfold(20): 0.298 Alterna: 0.129 Sensitivity PPfold(20): 0.101 Alterna: 0.030 Positive Predictive Value PPfold(20): 0.879 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs Alterna Matthews Correlation Coefficient RNAshapes: 0.295 Alterna: 0.129 Sensitivity RNAshapes: 0.180 Alterna: 0.030 Positive Predictive Value RNAshapes: 0.484 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs Alterna Matthews Correlation Coefficient Carnac(20): 0.288 Alterna: 0.129 Sensitivity Carnac(20): 0.093 Alterna: 0.030 Positive Predictive Value Carnac(20): 0.892 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs Alterna Matthews Correlation Coefficient RNASLOpt: 0.281 Alterna: 0.129 Sensitivity RNASLOpt: 0.158 Alterna: 0.030 Positive Predictive Value RNASLOpt: 0.502 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs Alterna Matthews Correlation Coefficient RSpredict(20): 0.270 Alterna: 0.129 Sensitivity RSpredict(20): 0.124 Alterna: 0.030 Positive Predictive Value RSpredict(20): 0.590 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs Alterna Matthews Correlation Coefficient Multilign(20): 0.251 Alterna: 0.129 Sensitivity Multilign(20): 0.083 Alterna: 0.030 Positive Predictive Value Multilign(20): 0.762 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs Alterna Matthews Correlation Coefficient RNAwolf: 0.251 Alterna: 0.129 Sensitivity RNAwolf: 0.191 Alterna: 0.030 Positive Predictive Value RNAwolf: 0.330 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs Alterna Matthews Correlation Coefficient Murlet(20): 0.230 Alterna: 0.129 Sensitivity Murlet(20): 0.067 Alterna: 0.030 Positive Predictive Value Murlet(20): 0.787 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs Alterna Matthews Correlation Coefficient Vsfold4: 0.217 Alterna: 0.129 Sensitivity Vsfold4: 0.125 Alterna: 0.030 Positive Predictive Value Vsfold4: 0.378 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold5 vs Alterna Matthews Correlation Coefficient Vsfold5: 0.211 Alterna: 0.129 Sensitivity Vsfold5: 0.125 Alterna: 0.030 Positive Predictive Value Vsfold5: 0.359 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(seed) vs Alterna Matthews Correlation Coefficient RSpredict(seed): 0.212 Alterna: 0.129 Sensitivity RSpredict(seed): 0.075 Alterna: 0.030 Positive Predictive Value RSpredict(seed): 0.597 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(20) vs Alterna Matthews Correlation Coefficient CMfinder(20): 0.210 Alterna: 0.129 Sensitivity CMfinder(20): 0.055 Alterna: 0.030 Positive Predictive Value CMfinder(20): 0.794 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 HotKnots vs Alterna Matthews Correlation Coefficient HotKnots: 0.179 Alterna: 0.129 Sensitivity HotKnots: 0.051 Alterna: 0.030 Positive Predictive Value HotKnots: 0.624 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASampler(20) vs Alterna Matthews Correlation Coefficient RNASampler(20): 0.176 Alterna: 0.129 Sensitivity RNASampler(20): 0.035 Alterna: 0.030 Positive Predictive Value RNASampler(20): 0.877 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Cylofold vs Alterna Matthews Correlation Coefficient Cylofold: 0.155 Alterna: 0.129 Sensitivity Cylofold: 0.040 Alterna: 0.030 Positive Predictive Value Cylofold: 0.606 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Pknots vs Alterna Matthews Correlation Coefficient Pknots: 0.143 Alterna: 0.129 Sensitivity Pknots: 0.033 Alterna: 0.030 Positive Predictive Value Pknots: 0.624 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Mastr(20) vs Alterna Matthews Correlation Coefficient Mastr(20): 0.134 Alterna: 0.129 Sensitivity Mastr(20): 0.023 Alterna: 0.030 Positive Predictive Value Mastr(20): 0.790 Alterna: 0.566 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ Alterna vs MCFold Matthews Correlation Coefficient Alterna: 0.129 MCFold: 0.125 Sensitivity Alterna: 0.030 MCFold: 0.036 Positive Predictive Value Alterna: 0.566 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs RDfolder Matthews Correlation Coefficient Alterna: 0.129 RDfolder: 0.122 Sensitivity Alterna: 0.030 RDfolder: 0.025 Positive Predictive Value Alterna: 0.566 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs Murlet(seed) Matthews Correlation Coefficient Alterna: 0.129 Murlet(seed): 0.079 Sensitivity Alterna: 0.030 Murlet(seed): 0.008 Positive Predictive Value Alterna: 0.566 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs CMfinder(seed) Matthews Correlation Coefficient Alterna: 0.129 CMfinder(seed): 0.080 Sensitivity Alterna: 0.030 CMfinder(seed): 0.008 Positive Predictive Value Alterna: 0.566 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs TurboFold(seed) Matthews Correlation Coefficient Alterna: 0.129 TurboFold(seed): 0.076 Sensitivity Alterna: 0.030 TurboFold(seed): 0.007 Positive Predictive Value Alterna: 0.566 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs PPfold(seed) Matthews Correlation Coefficient Alterna: 0.129 PPfold(seed): 0.069 Sensitivity Alterna: 0.030 PPfold(seed): 0.006 Positive Predictive Value Alterna: 0.566 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs Carnac(seed) Matthews Correlation Coefficient Alterna: 0.129 Carnac(seed): 0.066 Sensitivity Alterna: 0.030 Carnac(seed): 0.005 Positive Predictive Value Alterna: 0.566 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs RNASampler(seed) Matthews Correlation Coefficient Alterna: 0.129 RNASampler(seed): 0.063 Sensitivity Alterna: 0.030 RNASampler(seed): 0.005 Positive Predictive Value Alterna: 0.566 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs NanoFolder Matthews Correlation Coefficient Alterna: 0.129 NanoFolder: 0.052 Sensitivity Alterna: 0.030 NanoFolder: 0.016 Positive Predictive Value Alterna: 0.566 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs Mastr(seed) Matthews Correlation Coefficient Alterna: 0.129 Mastr(seed): 0.051 Sensitivity Alterna: 0.030 Mastr(seed): 0.003 Positive Predictive Value Alterna: 0.566 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs Multilign(seed) Matthews Correlation Coefficient Alterna: 0.129 Multilign(seed): 0.043 Sensitivity Alterna: 0.030 Multilign(seed): 0.003 Positive Predictive Value Alterna: 0.566 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
MCFold	1987 ContextFold vs MCFold Matthews Correlation Coefficient ContextFold: 0.680 MCFold: 0.125 Sensitivity ContextFold: 0.644 MCFold: 0.036 Positive Predictive Value ContextFold: 0.718 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs MCFold Matthews Correlation Coefficient IPknot: 0.548 MCFold: 0.125 Sensitivity IPknot: 0.475 MCFold: 0.036 Positive Predictive Value IPknot: 0.632 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs MCFold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 MCFold: 0.125 Sensitivity PETfold_pre2.0(seed): 0.343 MCFold: 0.036 Positive Predictive Value PETfold_pre2.0(seed): 0.814 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs MCFold Matthews Correlation Coefficient Contrafold: 0.508 MCFold: 0.125 Sensitivity Contrafold: 0.481 MCFold: 0.036 Positive Predictive Value Contrafold: 0.537 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs MCFold Matthews Correlation Coefficient CentroidFold: 0.470 MCFold: 0.125 Sensitivity CentroidFold: 0.369 MCFold: 0.036 Positive Predictive Value CentroidFold: 0.600 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs MCFold Matthews Correlation Coefficient Sfold: 0.469 MCFold: 0.125 Sensitivity Sfold: 0.412 MCFold: 0.036 Positive Predictive Value Sfold: 0.535 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs MCFold Matthews Correlation Coefficient MaxExpect: 0.465 MCFold: 0.125 Sensitivity MaxExpect: 0.443 MCFold: 0.036 Positive Predictive Value MaxExpect: 0.488 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs MCFold Matthews Correlation Coefficient ProbKnot: 0.460 MCFold: 0.125 Sensitivity ProbKnot: 0.446 MCFold: 0.036 Positive Predictive Value ProbKnot: 0.475 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs MCFold Matthews Correlation Coefficient UNAFold: 0.445 MCFold: 0.125 Sensitivity UNAFold: 0.445 MCFold: 0.036 Positive Predictive Value UNAFold: 0.446 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs MCFold Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 MCFold: 0.125 Sensitivity CentroidAlifold(seed): 0.213 MCFold: 0.036 Positive Predictive Value CentroidAlifold(seed): 0.901 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs MCFold Matthews Correlation Coefficient Fold: 0.437 MCFold: 0.125 Sensitivity Fold: 0.432 MCFold: 0.036 Positive Predictive Value Fold: 0.444 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs MCFold Matthews Correlation Coefficient RNAfold: 0.429 MCFold: 0.125 Sensitivity RNAfold: 0.422 MCFold: 0.036 Positive Predictive Value RNAfold: 0.437 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs MCFold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 MCFold: 0.125 Sensitivity CentroidHomfold‑LAST: 0.216 MCFold: 0.036 Positive Predictive Value CentroidHomfold‑LAST: 0.850 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs MCFold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 MCFold: 0.125 Sensitivity PETfold_pre2.0(20): 0.211 MCFold: 0.036 Positive Predictive Value PETfold_pre2.0(20): 0.807 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs MCFold Matthews Correlation Coefficient CentroidAlifold(20): 0.411 MCFold: 0.125 Sensitivity CentroidAlifold(20): 0.190 MCFold: 0.036 Positive Predictive Value CentroidAlifold(20): 0.891 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs MCFold Matthews Correlation Coefficient PknotsRG: 0.386 MCFold: 0.125 Sensitivity PknotsRG: 0.320 MCFold: 0.036 Positive Predictive Value PknotsRG: 0.465 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs MCFold Matthews Correlation Coefficient MXScarna(seed): 0.385 MCFold: 0.125 Sensitivity MXScarna(seed): 0.196 MCFold: 0.036 Positive Predictive Value MXScarna(seed): 0.753 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs MCFold Matthews Correlation Coefficient RNAalifold(20): 0.381 MCFold: 0.125 Sensitivity RNAalifold(20): 0.185 MCFold: 0.036 Positive Predictive Value RNAalifold(20): 0.787 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs MCFold Matthews Correlation Coefficient RNAalifold(seed): 0.375 MCFold: 0.125 Sensitivity RNAalifold(seed): 0.169 MCFold: 0.036 Positive Predictive Value RNAalifold(seed): 0.835 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs MCFold Matthews Correlation Coefficient Afold: 0.358 MCFold: 0.125 Sensitivity Afold: 0.295 MCFold: 0.036 Positive Predictive Value Afold: 0.434 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs MCFold Matthews Correlation Coefficient MXScarna(20): 0.359 MCFold: 0.125 Sensitivity MXScarna(20): 0.181 MCFold: 0.036 Positive Predictive Value MXScarna(20): 0.710 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs MCFold Matthews Correlation Coefficient CRWrnafold: 0.346 MCFold: 0.125 Sensitivity CRWrnafold: 0.275 MCFold: 0.036 Positive Predictive Value CRWrnafold: 0.435 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs MCFold Matthews Correlation Coefficient RNAsubopt: 0.336 MCFold: 0.125 Sensitivity RNAsubopt: 0.217 MCFold: 0.036 Positive Predictive Value RNAsubopt: 0.521 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs MCFold Matthews Correlation Coefficient McQFold: 0.314 MCFold: 0.125 Sensitivity McQFold: 0.205 MCFold: 0.036 Positive Predictive Value McQFold: 0.480 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs MCFold Matthews Correlation Coefficient TurboFold(20): 0.301 MCFold: 0.125 Sensitivity TurboFold(20): 0.108 MCFold: 0.036 Positive Predictive Value TurboFold(20): 0.837 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs MCFold Matthews Correlation Coefficient PPfold(20): 0.298 MCFold: 0.125 Sensitivity PPfold(20): 0.101 MCFold: 0.036 Positive Predictive Value PPfold(20): 0.879 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs MCFold Matthews Correlation Coefficient RNAshapes: 0.295 MCFold: 0.125 Sensitivity RNAshapes: 0.180 MCFold: 0.036 Positive Predictive Value RNAshapes: 0.484 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs MCFold Matthews Correlation Coefficient Carnac(20): 0.288 MCFold: 0.125 Sensitivity Carnac(20): 0.093 MCFold: 0.036 Positive Predictive Value Carnac(20): 0.892 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs MCFold Matthews Correlation Coefficient RNASLOpt: 0.281 MCFold: 0.125 Sensitivity RNASLOpt: 0.158 MCFold: 0.036 Positive Predictive Value RNASLOpt: 0.502 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs MCFold Matthews Correlation Coefficient RSpredict(20): 0.270 MCFold: 0.125 Sensitivity RSpredict(20): 0.124 MCFold: 0.036 Positive Predictive Value RSpredict(20): 0.590 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs MCFold Matthews Correlation Coefficient Multilign(20): 0.251 MCFold: 0.125 Sensitivity Multilign(20): 0.083 MCFold: 0.036 Positive Predictive Value Multilign(20): 0.762 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs MCFold Matthews Correlation Coefficient RNAwolf: 0.251 MCFold: 0.125 Sensitivity RNAwolf: 0.191 MCFold: 0.036 Positive Predictive Value RNAwolf: 0.330 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs MCFold Matthews Correlation Coefficient Murlet(20): 0.230 MCFold: 0.125 Sensitivity Murlet(20): 0.067 MCFold: 0.036 Positive Predictive Value Murlet(20): 0.787 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs MCFold Matthews Correlation Coefficient Vsfold4: 0.217 MCFold: 0.125 Sensitivity Vsfold4: 0.125 MCFold: 0.036 Positive Predictive Value Vsfold4: 0.378 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold5 vs MCFold Matthews Correlation Coefficient Vsfold5: 0.211 MCFold: 0.125 Sensitivity Vsfold5: 0.125 MCFold: 0.036 Positive Predictive Value Vsfold5: 0.359 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(seed) vs MCFold Matthews Correlation Coefficient RSpredict(seed): 0.212 MCFold: 0.125 Sensitivity RSpredict(seed): 0.075 MCFold: 0.036 Positive Predictive Value RSpredict(seed): 0.597 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(20) vs MCFold Matthews Correlation Coefficient CMfinder(20): 0.210 MCFold: 0.125 Sensitivity CMfinder(20): 0.055 MCFold: 0.036 Positive Predictive Value CMfinder(20): 0.794 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 HotKnots vs MCFold Matthews Correlation Coefficient HotKnots: 0.179 MCFold: 0.125 Sensitivity HotKnots: 0.051 MCFold: 0.036 Positive Predictive Value HotKnots: 0.624 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASampler(20) vs MCFold Matthews Correlation Coefficient RNASampler(20): 0.176 MCFold: 0.125 Sensitivity RNASampler(20): 0.035 MCFold: 0.036 Positive Predictive Value RNASampler(20): 0.877 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Cylofold vs MCFold Matthews Correlation Coefficient Cylofold: 0.155 MCFold: 0.125 Sensitivity Cylofold: 0.040 MCFold: 0.036 Positive Predictive Value Cylofold: 0.606 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Pknots vs MCFold Matthews Correlation Coefficient Pknots: 0.143 MCFold: 0.125 Sensitivity Pknots: 0.033 MCFold: 0.036 Positive Predictive Value Pknots: 0.624 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Mastr(20) vs MCFold Matthews Correlation Coefficient Mastr(20): 0.134 MCFold: 0.125 Sensitivity Mastr(20): 0.023 MCFold: 0.036 Positive Predictive Value Mastr(20): 0.790 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Alterna vs MCFold Matthews Correlation Coefficient Alterna: 0.129 MCFold: 0.125 Sensitivity Alterna: 0.030 MCFold: 0.036 Positive Predictive Value Alterna: 0.566 MCFold: 0.435 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ MCFold vs RDfolder Matthews Correlation Coefficient MCFold: 0.125 RDfolder: 0.122 Sensitivity MCFold: 0.036 RDfolder: 0.025 Positive Predictive Value MCFold: 0.435 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MCFold vs Murlet(seed) Matthews Correlation Coefficient MCFold: 0.125 Murlet(seed): 0.079 Sensitivity MCFold: 0.036 Murlet(seed): 0.008 Positive Predictive Value MCFold: 0.435 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MCFold vs CMfinder(seed) Matthews Correlation Coefficient MCFold: 0.125 CMfinder(seed): 0.080 Sensitivity MCFold: 0.036 CMfinder(seed): 0.008 Positive Predictive Value MCFold: 0.435 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MCFold vs TurboFold(seed) Matthews Correlation Coefficient MCFold: 0.125 TurboFold(seed): 0.076 Sensitivity MCFold: 0.036 TurboFold(seed): 0.007 Positive Predictive Value MCFold: 0.435 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MCFold vs PPfold(seed) Matthews Correlation Coefficient MCFold: 0.125 PPfold(seed): 0.069 Sensitivity MCFold: 0.036 PPfold(seed): 0.006 Positive Predictive Value MCFold: 0.435 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MCFold vs Carnac(seed) Matthews Correlation Coefficient MCFold: 0.125 Carnac(seed): 0.066 Sensitivity MCFold: 0.036 Carnac(seed): 0.005 Positive Predictive Value MCFold: 0.435 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MCFold vs RNASampler(seed) Matthews Correlation Coefficient MCFold: 0.125 RNASampler(seed): 0.063 Sensitivity MCFold: 0.036 RNASampler(seed): 0.005 Positive Predictive Value MCFold: 0.435 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MCFold vs NanoFolder Matthews Correlation Coefficient MCFold: 0.125 NanoFolder: 0.052 Sensitivity MCFold: 0.036 NanoFolder: 0.016 Positive Predictive Value MCFold: 0.435 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MCFold vs Mastr(seed) Matthews Correlation Coefficient MCFold: 0.125 Mastr(seed): 0.051 Sensitivity MCFold: 0.036 Mastr(seed): 0.003 Positive Predictive Value MCFold: 0.435 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MCFold vs Multilign(seed) Matthews Correlation Coefficient MCFold: 0.125 Multilign(seed): 0.043 Sensitivity MCFold: 0.036 Multilign(seed): 0.003 Positive Predictive Value MCFold: 0.435 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
RDfolder	1987 ContextFold vs RDfolder Matthews Correlation Coefficient ContextFold: 0.680 RDfolder: 0.122 Sensitivity ContextFold: 0.644 RDfolder: 0.025 Positive Predictive Value ContextFold: 0.718 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs RDfolder Matthews Correlation Coefficient IPknot: 0.548 RDfolder: 0.122 Sensitivity IPknot: 0.475 RDfolder: 0.025 Positive Predictive Value IPknot: 0.632 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs RDfolder Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RDfolder: 0.122 Sensitivity PETfold_pre2.0(seed): 0.343 RDfolder: 0.025 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs RDfolder Matthews Correlation Coefficient Contrafold: 0.508 RDfolder: 0.122 Sensitivity Contrafold: 0.481 RDfolder: 0.025 Positive Predictive Value Contrafold: 0.537 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs RDfolder Matthews Correlation Coefficient CentroidFold: 0.470 RDfolder: 0.122 Sensitivity CentroidFold: 0.369 RDfolder: 0.025 Positive Predictive Value CentroidFold: 0.600 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs RDfolder Matthews Correlation Coefficient Sfold: 0.469 RDfolder: 0.122 Sensitivity Sfold: 0.412 RDfolder: 0.025 Positive Predictive Value Sfold: 0.535 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs RDfolder Matthews Correlation Coefficient MaxExpect: 0.465 RDfolder: 0.122 Sensitivity MaxExpect: 0.443 RDfolder: 0.025 Positive Predictive Value MaxExpect: 0.488 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs RDfolder Matthews Correlation Coefficient ProbKnot: 0.460 RDfolder: 0.122 Sensitivity ProbKnot: 0.446 RDfolder: 0.025 Positive Predictive Value ProbKnot: 0.475 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs RDfolder Matthews Correlation Coefficient UNAFold: 0.445 RDfolder: 0.122 Sensitivity UNAFold: 0.445 RDfolder: 0.025 Positive Predictive Value UNAFold: 0.446 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs RDfolder Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RDfolder: 0.122 Sensitivity CentroidAlifold(seed): 0.213 RDfolder: 0.025 Positive Predictive Value CentroidAlifold(seed): 0.901 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs RDfolder Matthews Correlation Coefficient Fold: 0.437 RDfolder: 0.122 Sensitivity Fold: 0.432 RDfolder: 0.025 Positive Predictive Value Fold: 0.444 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs RDfolder Matthews Correlation Coefficient RNAfold: 0.429 RDfolder: 0.122 Sensitivity RNAfold: 0.422 RDfolder: 0.025 Positive Predictive Value RNAfold: 0.437 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs RDfolder Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RDfolder: 0.122 Sensitivity CentroidHomfold‑LAST: 0.216 RDfolder: 0.025 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs RDfolder Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RDfolder: 0.122 Sensitivity PETfold_pre2.0(20): 0.211 RDfolder: 0.025 Positive Predictive Value PETfold_pre2.0(20): 0.807 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs RDfolder Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RDfolder: 0.122 Sensitivity CentroidAlifold(20): 0.190 RDfolder: 0.025 Positive Predictive Value CentroidAlifold(20): 0.891 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs RDfolder Matthews Correlation Coefficient PknotsRG: 0.386 RDfolder: 0.122 Sensitivity PknotsRG: 0.320 RDfolder: 0.025 Positive Predictive Value PknotsRG: 0.465 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs RDfolder Matthews Correlation Coefficient MXScarna(seed): 0.385 RDfolder: 0.122 Sensitivity MXScarna(seed): 0.196 RDfolder: 0.025 Positive Predictive Value MXScarna(seed): 0.753 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs RDfolder Matthews Correlation Coefficient RNAalifold(20): 0.381 RDfolder: 0.122 Sensitivity RNAalifold(20): 0.185 RDfolder: 0.025 Positive Predictive Value RNAalifold(20): 0.787 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs RDfolder Matthews Correlation Coefficient RNAalifold(seed): 0.375 RDfolder: 0.122 Sensitivity RNAalifold(seed): 0.169 RDfolder: 0.025 Positive Predictive Value RNAalifold(seed): 0.835 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs RDfolder Matthews Correlation Coefficient Afold: 0.358 RDfolder: 0.122 Sensitivity Afold: 0.295 RDfolder: 0.025 Positive Predictive Value Afold: 0.434 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs RDfolder Matthews Correlation Coefficient MXScarna(20): 0.359 RDfolder: 0.122 Sensitivity MXScarna(20): 0.181 RDfolder: 0.025 Positive Predictive Value MXScarna(20): 0.710 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs RDfolder Matthews Correlation Coefficient CRWrnafold: 0.346 RDfolder: 0.122 Sensitivity CRWrnafold: 0.275 RDfolder: 0.025 Positive Predictive Value CRWrnafold: 0.435 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs RDfolder Matthews Correlation Coefficient RNAsubopt: 0.336 RDfolder: 0.122 Sensitivity RNAsubopt: 0.217 RDfolder: 0.025 Positive Predictive Value RNAsubopt: 0.521 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs RDfolder Matthews Correlation Coefficient McQFold: 0.314 RDfolder: 0.122 Sensitivity McQFold: 0.205 RDfolder: 0.025 Positive Predictive Value McQFold: 0.480 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs RDfolder Matthews Correlation Coefficient TurboFold(20): 0.301 RDfolder: 0.122 Sensitivity TurboFold(20): 0.108 RDfolder: 0.025 Positive Predictive Value TurboFold(20): 0.837 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs RDfolder Matthews Correlation Coefficient PPfold(20): 0.298 RDfolder: 0.122 Sensitivity PPfold(20): 0.101 RDfolder: 0.025 Positive Predictive Value PPfold(20): 0.879 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs RDfolder Matthews Correlation Coefficient RNAshapes: 0.295 RDfolder: 0.122 Sensitivity RNAshapes: 0.180 RDfolder: 0.025 Positive Predictive Value RNAshapes: 0.484 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs RDfolder Matthews Correlation Coefficient Carnac(20): 0.288 RDfolder: 0.122 Sensitivity Carnac(20): 0.093 RDfolder: 0.025 Positive Predictive Value Carnac(20): 0.892 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs RDfolder Matthews Correlation Coefficient RNASLOpt: 0.281 RDfolder: 0.122 Sensitivity RNASLOpt: 0.158 RDfolder: 0.025 Positive Predictive Value RNASLOpt: 0.502 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs RDfolder Matthews Correlation Coefficient RSpredict(20): 0.270 RDfolder: 0.122 Sensitivity RSpredict(20): 0.124 RDfolder: 0.025 Positive Predictive Value RSpredict(20): 0.590 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs RDfolder Matthews Correlation Coefficient Multilign(20): 0.251 RDfolder: 0.122 Sensitivity Multilign(20): 0.083 RDfolder: 0.025 Positive Predictive Value Multilign(20): 0.762 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs RDfolder Matthews Correlation Coefficient RNAwolf: 0.251 RDfolder: 0.122 Sensitivity RNAwolf: 0.191 RDfolder: 0.025 Positive Predictive Value RNAwolf: 0.330 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs RDfolder Matthews Correlation Coefficient Murlet(20): 0.230 RDfolder: 0.122 Sensitivity Murlet(20): 0.067 RDfolder: 0.025 Positive Predictive Value Murlet(20): 0.787 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs RDfolder Matthews Correlation Coefficient Vsfold4: 0.217 RDfolder: 0.122 Sensitivity Vsfold4: 0.125 RDfolder: 0.025 Positive Predictive Value Vsfold4: 0.378 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold5 vs RDfolder Matthews Correlation Coefficient Vsfold5: 0.211 RDfolder: 0.122 Sensitivity Vsfold5: 0.125 RDfolder: 0.025 Positive Predictive Value Vsfold5: 0.359 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(seed) vs RDfolder Matthews Correlation Coefficient RSpredict(seed): 0.212 RDfolder: 0.122 Sensitivity RSpredict(seed): 0.075 RDfolder: 0.025 Positive Predictive Value RSpredict(seed): 0.597 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(20) vs RDfolder Matthews Correlation Coefficient CMfinder(20): 0.210 RDfolder: 0.122 Sensitivity CMfinder(20): 0.055 RDfolder: 0.025 Positive Predictive Value CMfinder(20): 0.794 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 HotKnots vs RDfolder Matthews Correlation Coefficient HotKnots: 0.179 RDfolder: 0.122 Sensitivity HotKnots: 0.051 RDfolder: 0.025 Positive Predictive Value HotKnots: 0.624 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASampler(20) vs RDfolder Matthews Correlation Coefficient RNASampler(20): 0.176 RDfolder: 0.122 Sensitivity RNASampler(20): 0.035 RDfolder: 0.025 Positive Predictive Value RNASampler(20): 0.877 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Cylofold vs RDfolder Matthews Correlation Coefficient Cylofold: 0.155 RDfolder: 0.122 Sensitivity Cylofold: 0.040 RDfolder: 0.025 Positive Predictive Value Cylofold: 0.606 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Pknots vs RDfolder Matthews Correlation Coefficient Pknots: 0.143 RDfolder: 0.122 Sensitivity Pknots: 0.033 RDfolder: 0.025 Positive Predictive Value Pknots: 0.624 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Mastr(20) vs RDfolder Matthews Correlation Coefficient Mastr(20): 0.134 RDfolder: 0.122 Sensitivity Mastr(20): 0.023 RDfolder: 0.025 Positive Predictive Value Mastr(20): 0.790 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Alterna vs RDfolder Matthews Correlation Coefficient Alterna: 0.129 RDfolder: 0.122 Sensitivity Alterna: 0.030 RDfolder: 0.025 Positive Predictive Value Alterna: 0.566 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MCFold vs RDfolder Matthews Correlation Coefficient MCFold: 0.125 RDfolder: 0.122 Sensitivity MCFold: 0.036 RDfolder: 0.025 Positive Predictive Value MCFold: 0.435 RDfolder: 0.592 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ RDfolder vs Murlet(seed) Matthews Correlation Coefficient RDfolder: 0.122 Murlet(seed): 0.079 Sensitivity RDfolder: 0.025 Murlet(seed): 0.008 Positive Predictive Value RDfolder: 0.592 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RDfolder vs CMfinder(seed) Matthews Correlation Coefficient RDfolder: 0.122 CMfinder(seed): 0.080 Sensitivity RDfolder: 0.025 CMfinder(seed): 0.008 Positive Predictive Value RDfolder: 0.592 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RDfolder vs TurboFold(seed) Matthews Correlation Coefficient RDfolder: 0.122 TurboFold(seed): 0.076 Sensitivity RDfolder: 0.025 TurboFold(seed): 0.007 Positive Predictive Value RDfolder: 0.592 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RDfolder vs PPfold(seed) Matthews Correlation Coefficient RDfolder: 0.122 PPfold(seed): 0.069 Sensitivity RDfolder: 0.025 PPfold(seed): 0.006 Positive Predictive Value RDfolder: 0.592 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RDfolder vs Carnac(seed) Matthews Correlation Coefficient RDfolder: 0.122 Carnac(seed): 0.066 Sensitivity RDfolder: 0.025 Carnac(seed): 0.005 Positive Predictive Value RDfolder: 0.592 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RDfolder vs RNASampler(seed) Matthews Correlation Coefficient RDfolder: 0.122 RNASampler(seed): 0.063 Sensitivity RDfolder: 0.025 RNASampler(seed): 0.005 Positive Predictive Value RDfolder: 0.592 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RDfolder vs NanoFolder Matthews Correlation Coefficient RDfolder: 0.122 NanoFolder: 0.052 Sensitivity RDfolder: 0.025 NanoFolder: 0.016 Positive Predictive Value RDfolder: 0.592 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RDfolder vs Mastr(seed) Matthews Correlation Coefficient RDfolder: 0.122 Mastr(seed): 0.051 Sensitivity RDfolder: 0.025 Mastr(seed): 0.003 Positive Predictive Value RDfolder: 0.592 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RDfolder vs Multilign(seed) Matthews Correlation Coefficient RDfolder: 0.122 Multilign(seed): 0.043 Sensitivity RDfolder: 0.025 Multilign(seed): 0.003 Positive Predictive Value RDfolder: 0.592 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
Murlet(seed)	1987 ContextFold vs Murlet(seed) Matthews Correlation Coefficient ContextFold: 0.680 Murlet(seed): 0.079 Sensitivity ContextFold: 0.644 Murlet(seed): 0.008 Positive Predictive Value ContextFold: 0.718 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs Murlet(seed) Matthews Correlation Coefficient IPknot: 0.548 Murlet(seed): 0.079 Sensitivity IPknot: 0.475 Murlet(seed): 0.008 Positive Predictive Value IPknot: 0.632 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs Murlet(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Murlet(seed): 0.079 Sensitivity PETfold_pre2.0(seed): 0.343 Murlet(seed): 0.008 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs Murlet(seed) Matthews Correlation Coefficient Contrafold: 0.508 Murlet(seed): 0.079 Sensitivity Contrafold: 0.481 Murlet(seed): 0.008 Positive Predictive Value Contrafold: 0.537 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs Murlet(seed) Matthews Correlation Coefficient CentroidFold: 0.470 Murlet(seed): 0.079 Sensitivity CentroidFold: 0.369 Murlet(seed): 0.008 Positive Predictive Value CentroidFold: 0.600 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs Murlet(seed) Matthews Correlation Coefficient Sfold: 0.469 Murlet(seed): 0.079 Sensitivity Sfold: 0.412 Murlet(seed): 0.008 Positive Predictive Value Sfold: 0.535 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs Murlet(seed) Matthews Correlation Coefficient MaxExpect: 0.465 Murlet(seed): 0.079 Sensitivity MaxExpect: 0.443 Murlet(seed): 0.008 Positive Predictive Value MaxExpect: 0.488 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs Murlet(seed) Matthews Correlation Coefficient ProbKnot: 0.460 Murlet(seed): 0.079 Sensitivity ProbKnot: 0.446 Murlet(seed): 0.008 Positive Predictive Value ProbKnot: 0.475 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs Murlet(seed) Matthews Correlation Coefficient UNAFold: 0.445 Murlet(seed): 0.079 Sensitivity UNAFold: 0.445 Murlet(seed): 0.008 Positive Predictive Value UNAFold: 0.446 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs Murlet(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Murlet(seed): 0.079 Sensitivity CentroidAlifold(seed): 0.213 Murlet(seed): 0.008 Positive Predictive Value CentroidAlifold(seed): 0.901 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs Murlet(seed) Matthews Correlation Coefficient Fold: 0.437 Murlet(seed): 0.079 Sensitivity Fold: 0.432 Murlet(seed): 0.008 Positive Predictive Value Fold: 0.444 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs Murlet(seed) Matthews Correlation Coefficient RNAfold: 0.429 Murlet(seed): 0.079 Sensitivity RNAfold: 0.422 Murlet(seed): 0.008 Positive Predictive Value RNAfold: 0.437 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs Murlet(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Murlet(seed): 0.079 Sensitivity CentroidHomfold‑LAST: 0.216 Murlet(seed): 0.008 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs Murlet(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Murlet(seed): 0.079 Sensitivity PETfold_pre2.0(20): 0.211 Murlet(seed): 0.008 Positive Predictive Value PETfold_pre2.0(20): 0.807 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs Murlet(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Murlet(seed): 0.079 Sensitivity CentroidAlifold(20): 0.190 Murlet(seed): 0.008 Positive Predictive Value CentroidAlifold(20): 0.891 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs Murlet(seed) Matthews Correlation Coefficient PknotsRG: 0.386 Murlet(seed): 0.079 Sensitivity PknotsRG: 0.320 Murlet(seed): 0.008 Positive Predictive Value PknotsRG: 0.465 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs Murlet(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 Murlet(seed): 0.079 Sensitivity MXScarna(seed): 0.196 Murlet(seed): 0.008 Positive Predictive Value MXScarna(seed): 0.753 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs Murlet(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 Murlet(seed): 0.079 Sensitivity RNAalifold(20): 0.185 Murlet(seed): 0.008 Positive Predictive Value RNAalifold(20): 0.787 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs Murlet(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.375 Murlet(seed): 0.079 Sensitivity RNAalifold(seed): 0.169 Murlet(seed): 0.008 Positive Predictive Value RNAalifold(seed): 0.835 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs Murlet(seed) Matthews Correlation Coefficient Afold: 0.358 Murlet(seed): 0.079 Sensitivity Afold: 0.295 Murlet(seed): 0.008 Positive Predictive Value Afold: 0.434 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs Murlet(seed) Matthews Correlation Coefficient MXScarna(20): 0.359 Murlet(seed): 0.079 Sensitivity MXScarna(20): 0.181 Murlet(seed): 0.008 Positive Predictive Value MXScarna(20): 0.710 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs Murlet(seed) Matthews Correlation Coefficient CRWrnafold: 0.346 Murlet(seed): 0.079 Sensitivity CRWrnafold: 0.275 Murlet(seed): 0.008 Positive Predictive Value CRWrnafold: 0.435 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs Murlet(seed) Matthews Correlation Coefficient RNAsubopt: 0.336 Murlet(seed): 0.079 Sensitivity RNAsubopt: 0.217 Murlet(seed): 0.008 Positive Predictive Value RNAsubopt: 0.521 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs Murlet(seed) Matthews Correlation Coefficient McQFold: 0.314 Murlet(seed): 0.079 Sensitivity McQFold: 0.205 Murlet(seed): 0.008 Positive Predictive Value McQFold: 0.480 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs Murlet(seed) Matthews Correlation Coefficient TurboFold(20): 0.301 Murlet(seed): 0.079 Sensitivity TurboFold(20): 0.108 Murlet(seed): 0.008 Positive Predictive Value TurboFold(20): 0.837 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs Murlet(seed) Matthews Correlation Coefficient PPfold(20): 0.298 Murlet(seed): 0.079 Sensitivity PPfold(20): 0.101 Murlet(seed): 0.008 Positive Predictive Value PPfold(20): 0.879 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs Murlet(seed) Matthews Correlation Coefficient RNAshapes: 0.295 Murlet(seed): 0.079 Sensitivity RNAshapes: 0.180 Murlet(seed): 0.008 Positive Predictive Value RNAshapes: 0.484 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs Murlet(seed) Matthews Correlation Coefficient Carnac(20): 0.288 Murlet(seed): 0.079 Sensitivity Carnac(20): 0.093 Murlet(seed): 0.008 Positive Predictive Value Carnac(20): 0.892 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs Murlet(seed) Matthews Correlation Coefficient RNASLOpt: 0.281 Murlet(seed): 0.079 Sensitivity RNASLOpt: 0.158 Murlet(seed): 0.008 Positive Predictive Value RNASLOpt: 0.502 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs Murlet(seed) Matthews Correlation Coefficient RSpredict(20): 0.270 Murlet(seed): 0.079 Sensitivity RSpredict(20): 0.124 Murlet(seed): 0.008 Positive Predictive Value RSpredict(20): 0.590 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs Murlet(seed) Matthews Correlation Coefficient Multilign(20): 0.251 Murlet(seed): 0.079 Sensitivity Multilign(20): 0.083 Murlet(seed): 0.008 Positive Predictive Value Multilign(20): 0.762 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs Murlet(seed) Matthews Correlation Coefficient RNAwolf: 0.251 Murlet(seed): 0.079 Sensitivity RNAwolf: 0.191 Murlet(seed): 0.008 Positive Predictive Value RNAwolf: 0.330 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs Murlet(seed) Matthews Correlation Coefficient Murlet(20): 0.230 Murlet(seed): 0.079 Sensitivity Murlet(20): 0.067 Murlet(seed): 0.008 Positive Predictive Value Murlet(20): 0.787 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs Murlet(seed) Matthews Correlation Coefficient Vsfold4: 0.217 Murlet(seed): 0.079 Sensitivity Vsfold4: 0.125 Murlet(seed): 0.008 Positive Predictive Value Vsfold4: 0.378 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold5 vs Murlet(seed) Matthews Correlation Coefficient Vsfold5: 0.211 Murlet(seed): 0.079 Sensitivity Vsfold5: 0.125 Murlet(seed): 0.008 Positive Predictive Value Vsfold5: 0.359 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(seed) vs Murlet(seed) Matthews Correlation Coefficient RSpredict(seed): 0.212 Murlet(seed): 0.079 Sensitivity RSpredict(seed): 0.075 Murlet(seed): 0.008 Positive Predictive Value RSpredict(seed): 0.597 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(20) vs Murlet(seed) Matthews Correlation Coefficient CMfinder(20): 0.210 Murlet(seed): 0.079 Sensitivity CMfinder(20): 0.055 Murlet(seed): 0.008 Positive Predictive Value CMfinder(20): 0.794 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 HotKnots vs Murlet(seed) Matthews Correlation Coefficient HotKnots: 0.179 Murlet(seed): 0.079 Sensitivity HotKnots: 0.051 Murlet(seed): 0.008 Positive Predictive Value HotKnots: 0.624 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASampler(20) vs Murlet(seed) Matthews Correlation Coefficient RNASampler(20): 0.176 Murlet(seed): 0.079 Sensitivity RNASampler(20): 0.035 Murlet(seed): 0.008 Positive Predictive Value RNASampler(20): 0.877 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Cylofold vs Murlet(seed) Matthews Correlation Coefficient Cylofold: 0.155 Murlet(seed): 0.079 Sensitivity Cylofold: 0.040 Murlet(seed): 0.008 Positive Predictive Value Cylofold: 0.606 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Pknots vs Murlet(seed) Matthews Correlation Coefficient Pknots: 0.143 Murlet(seed): 0.079 Sensitivity Pknots: 0.033 Murlet(seed): 0.008 Positive Predictive Value Pknots: 0.624 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Mastr(20) vs Murlet(seed) Matthews Correlation Coefficient Mastr(20): 0.134 Murlet(seed): 0.079 Sensitivity Mastr(20): 0.023 Murlet(seed): 0.008 Positive Predictive Value Mastr(20): 0.790 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Alterna vs Murlet(seed) Matthews Correlation Coefficient Alterna: 0.129 Murlet(seed): 0.079 Sensitivity Alterna: 0.030 Murlet(seed): 0.008 Positive Predictive Value Alterna: 0.566 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MCFold vs Murlet(seed) Matthews Correlation Coefficient MCFold: 0.125 Murlet(seed): 0.079 Sensitivity MCFold: 0.036 Murlet(seed): 0.008 Positive Predictive Value MCFold: 0.435 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RDfolder vs Murlet(seed) Matthews Correlation Coefficient RDfolder: 0.122 Murlet(seed): 0.079 Sensitivity RDfolder: 0.025 Murlet(seed): 0.008 Positive Predictive Value RDfolder: 0.592 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		= CMfinder(seed) vs Murlet(seed) Matthews Correlation Coefficient CMfinder(seed): 0.080 Murlet(seed): 0.079 Sensitivity CMfinder(seed): 0.008 Murlet(seed): 0.008 Positive Predictive Value CMfinder(seed): 0.757 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.00238364898467	+ Murlet(seed) vs TurboFold(seed) Matthews Correlation Coefficient Murlet(seed): 0.079 TurboFold(seed): 0.076 Sensitivity Murlet(seed): 0.008 TurboFold(seed): 0.007 Positive Predictive Value Murlet(seed): 0.811 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 5.5212650266e-05	+ Murlet(seed) vs PPfold(seed) Matthews Correlation Coefficient Murlet(seed): 0.079 PPfold(seed): 0.069 Sensitivity Murlet(seed): 0.008 PPfold(seed): 0.006 Positive Predictive Value Murlet(seed): 0.811 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(seed) vs Carnac(seed) Matthews Correlation Coefficient Murlet(seed): 0.079 Carnac(seed): 0.066 Sensitivity Murlet(seed): 0.008 Carnac(seed): 0.005 Positive Predictive Value Murlet(seed): 0.811 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(seed) vs RNASampler(seed) Matthews Correlation Coefficient Murlet(seed): 0.079 RNASampler(seed): 0.063 Sensitivity Murlet(seed): 0.008 RNASampler(seed): 0.005 Positive Predictive Value Murlet(seed): 0.811 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(seed) vs NanoFolder Matthews Correlation Coefficient Murlet(seed): 0.079 NanoFolder: 0.052 Sensitivity Murlet(seed): 0.008 NanoFolder: 0.016 Positive Predictive Value Murlet(seed): 0.811 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(seed) vs Mastr(seed) Matthews Correlation Coefficient Murlet(seed): 0.079 Mastr(seed): 0.051 Sensitivity Murlet(seed): 0.008 Mastr(seed): 0.003 Positive Predictive Value Murlet(seed): 0.811 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(seed) vs Multilign(seed) Matthews Correlation Coefficient Murlet(seed): 0.079 Multilign(seed): 0.043 Sensitivity Murlet(seed): 0.008 Multilign(seed): 0.003 Positive Predictive Value Murlet(seed): 0.811 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
CMfinder(seed)	1987 ContextFold vs CMfinder(seed) Matthews Correlation Coefficient ContextFold: 0.680 CMfinder(seed): 0.080 Sensitivity ContextFold: 0.644 CMfinder(seed): 0.008 Positive Predictive Value ContextFold: 0.718 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs CMfinder(seed) Matthews Correlation Coefficient IPknot: 0.548 CMfinder(seed): 0.080 Sensitivity IPknot: 0.475 CMfinder(seed): 0.008 Positive Predictive Value IPknot: 0.632 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs CMfinder(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 CMfinder(seed): 0.080 Sensitivity PETfold_pre2.0(seed): 0.343 CMfinder(seed): 0.008 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs CMfinder(seed) Matthews Correlation Coefficient Contrafold: 0.508 CMfinder(seed): 0.080 Sensitivity Contrafold: 0.481 CMfinder(seed): 0.008 Positive Predictive Value Contrafold: 0.537 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs CMfinder(seed) Matthews Correlation Coefficient CentroidFold: 0.470 CMfinder(seed): 0.080 Sensitivity CentroidFold: 0.369 CMfinder(seed): 0.008 Positive Predictive Value CentroidFold: 0.600 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs CMfinder(seed) Matthews Correlation Coefficient Sfold: 0.469 CMfinder(seed): 0.080 Sensitivity Sfold: 0.412 CMfinder(seed): 0.008 Positive Predictive Value Sfold: 0.535 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs CMfinder(seed) Matthews Correlation Coefficient MaxExpect: 0.465 CMfinder(seed): 0.080 Sensitivity MaxExpect: 0.443 CMfinder(seed): 0.008 Positive Predictive Value MaxExpect: 0.488 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs CMfinder(seed) Matthews Correlation Coefficient ProbKnot: 0.460 CMfinder(seed): 0.080 Sensitivity ProbKnot: 0.446 CMfinder(seed): 0.008 Positive Predictive Value ProbKnot: 0.475 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs CMfinder(seed) Matthews Correlation Coefficient UNAFold: 0.445 CMfinder(seed): 0.080 Sensitivity UNAFold: 0.445 CMfinder(seed): 0.008 Positive Predictive Value UNAFold: 0.446 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs CMfinder(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 CMfinder(seed): 0.080 Sensitivity CentroidAlifold(seed): 0.213 CMfinder(seed): 0.008 Positive Predictive Value CentroidAlifold(seed): 0.901 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs CMfinder(seed) Matthews Correlation Coefficient Fold: 0.437 CMfinder(seed): 0.080 Sensitivity Fold: 0.432 CMfinder(seed): 0.008 Positive Predictive Value Fold: 0.444 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs CMfinder(seed) Matthews Correlation Coefficient RNAfold: 0.429 CMfinder(seed): 0.080 Sensitivity RNAfold: 0.422 CMfinder(seed): 0.008 Positive Predictive Value RNAfold: 0.437 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs CMfinder(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 CMfinder(seed): 0.080 Sensitivity CentroidHomfold‑LAST: 0.216 CMfinder(seed): 0.008 Positive Predictive Value CentroidHomfold‑LAST: 0.850 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs CMfinder(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 CMfinder(seed): 0.080 Sensitivity PETfold_pre2.0(20): 0.211 CMfinder(seed): 0.008 Positive Predictive Value PETfold_pre2.0(20): 0.807 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs CMfinder(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 CMfinder(seed): 0.080 Sensitivity CentroidAlifold(20): 0.190 CMfinder(seed): 0.008 Positive Predictive Value CentroidAlifold(20): 0.891 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs CMfinder(seed) Matthews Correlation Coefficient PknotsRG: 0.386 CMfinder(seed): 0.080 Sensitivity PknotsRG: 0.320 CMfinder(seed): 0.008 Positive Predictive Value PknotsRG: 0.465 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs CMfinder(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 CMfinder(seed): 0.080 Sensitivity MXScarna(seed): 0.196 CMfinder(seed): 0.008 Positive Predictive Value MXScarna(seed): 0.753 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs CMfinder(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 CMfinder(seed): 0.080 Sensitivity RNAalifold(20): 0.185 CMfinder(seed): 0.008 Positive Predictive Value RNAalifold(20): 0.787 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs CMfinder(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.375 CMfinder(seed): 0.080 Sensitivity RNAalifold(seed): 0.169 CMfinder(seed): 0.008 Positive Predictive Value RNAalifold(seed): 0.835 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs CMfinder(seed) Matthews Correlation Coefficient Afold: 0.358 CMfinder(seed): 0.080 Sensitivity Afold: 0.295 CMfinder(seed): 0.008 Positive Predictive Value Afold: 0.434 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs CMfinder(seed) Matthews Correlation Coefficient MXScarna(20): 0.359 CMfinder(seed): 0.080 Sensitivity MXScarna(20): 0.181 CMfinder(seed): 0.008 Positive Predictive Value MXScarna(20): 0.710 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs CMfinder(seed) Matthews Correlation Coefficient CRWrnafold: 0.346 CMfinder(seed): 0.080 Sensitivity CRWrnafold: 0.275 CMfinder(seed): 0.008 Positive Predictive Value CRWrnafold: 0.435 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs CMfinder(seed) Matthews Correlation Coefficient RNAsubopt: 0.336 CMfinder(seed): 0.080 Sensitivity RNAsubopt: 0.217 CMfinder(seed): 0.008 Positive Predictive Value RNAsubopt: 0.521 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs CMfinder(seed) Matthews Correlation Coefficient McQFold: 0.314 CMfinder(seed): 0.080 Sensitivity McQFold: 0.205 CMfinder(seed): 0.008 Positive Predictive Value McQFold: 0.480 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs CMfinder(seed) Matthews Correlation Coefficient TurboFold(20): 0.301 CMfinder(seed): 0.080 Sensitivity TurboFold(20): 0.108 CMfinder(seed): 0.008 Positive Predictive Value TurboFold(20): 0.837 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs CMfinder(seed) Matthews Correlation Coefficient PPfold(20): 0.298 CMfinder(seed): 0.080 Sensitivity PPfold(20): 0.101 CMfinder(seed): 0.008 Positive Predictive Value PPfold(20): 0.879 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs CMfinder(seed) Matthews Correlation Coefficient RNAshapes: 0.295 CMfinder(seed): 0.080 Sensitivity RNAshapes: 0.180 CMfinder(seed): 0.008 Positive Predictive Value RNAshapes: 0.484 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs CMfinder(seed) Matthews Correlation Coefficient Carnac(20): 0.288 CMfinder(seed): 0.080 Sensitivity Carnac(20): 0.093 CMfinder(seed): 0.008 Positive Predictive Value Carnac(20): 0.892 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs CMfinder(seed) Matthews Correlation Coefficient RNASLOpt: 0.281 CMfinder(seed): 0.080 Sensitivity RNASLOpt: 0.158 CMfinder(seed): 0.008 Positive Predictive Value RNASLOpt: 0.502 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs CMfinder(seed) Matthews Correlation Coefficient RSpredict(20): 0.270 CMfinder(seed): 0.080 Sensitivity RSpredict(20): 0.124 CMfinder(seed): 0.008 Positive Predictive Value RSpredict(20): 0.590 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs CMfinder(seed) Matthews Correlation Coefficient Multilign(20): 0.251 CMfinder(seed): 0.080 Sensitivity Multilign(20): 0.083 CMfinder(seed): 0.008 Positive Predictive Value Multilign(20): 0.762 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs CMfinder(seed) Matthews Correlation Coefficient RNAwolf: 0.251 CMfinder(seed): 0.080 Sensitivity RNAwolf: 0.191 CMfinder(seed): 0.008 Positive Predictive Value RNAwolf: 0.330 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs CMfinder(seed) Matthews Correlation Coefficient Murlet(20): 0.230 CMfinder(seed): 0.080 Sensitivity Murlet(20): 0.067 CMfinder(seed): 0.008 Positive Predictive Value Murlet(20): 0.787 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs CMfinder(seed) Matthews Correlation Coefficient Vsfold4: 0.217 CMfinder(seed): 0.080 Sensitivity Vsfold4: 0.125 CMfinder(seed): 0.008 Positive Predictive Value Vsfold4: 0.378 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold5 vs CMfinder(seed) Matthews Correlation Coefficient Vsfold5: 0.211 CMfinder(seed): 0.080 Sensitivity Vsfold5: 0.125 CMfinder(seed): 0.008 Positive Predictive Value Vsfold5: 0.359 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(seed) vs CMfinder(seed) Matthews Correlation Coefficient RSpredict(seed): 0.212 CMfinder(seed): 0.080 Sensitivity RSpredict(seed): 0.075 CMfinder(seed): 0.008 Positive Predictive Value RSpredict(seed): 0.597 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(20) vs CMfinder(seed) Matthews Correlation Coefficient CMfinder(20): 0.210 CMfinder(seed): 0.080 Sensitivity CMfinder(20): 0.055 CMfinder(seed): 0.008 Positive Predictive Value CMfinder(20): 0.794 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 HotKnots vs CMfinder(seed) Matthews Correlation Coefficient HotKnots: 0.179 CMfinder(seed): 0.080 Sensitivity HotKnots: 0.051 CMfinder(seed): 0.008 Positive Predictive Value HotKnots: 0.624 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASampler(20) vs CMfinder(seed) Matthews Correlation Coefficient RNASampler(20): 0.176 CMfinder(seed): 0.080 Sensitivity RNASampler(20): 0.035 CMfinder(seed): 0.008 Positive Predictive Value RNASampler(20): 0.877 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Cylofold vs CMfinder(seed) Matthews Correlation Coefficient Cylofold: 0.155 CMfinder(seed): 0.080 Sensitivity Cylofold: 0.040 CMfinder(seed): 0.008 Positive Predictive Value Cylofold: 0.606 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Pknots vs CMfinder(seed) Matthews Correlation Coefficient Pknots: 0.143 CMfinder(seed): 0.080 Sensitivity Pknots: 0.033 CMfinder(seed): 0.008 Positive Predictive Value Pknots: 0.624 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Mastr(20) vs CMfinder(seed) Matthews Correlation Coefficient Mastr(20): 0.134 CMfinder(seed): 0.080 Sensitivity Mastr(20): 0.023 CMfinder(seed): 0.008 Positive Predictive Value Mastr(20): 0.790 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Alterna vs CMfinder(seed) Matthews Correlation Coefficient Alterna: 0.129 CMfinder(seed): 0.080 Sensitivity Alterna: 0.030 CMfinder(seed): 0.008 Positive Predictive Value Alterna: 0.566 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MCFold vs CMfinder(seed) Matthews Correlation Coefficient MCFold: 0.125 CMfinder(seed): 0.080 Sensitivity MCFold: 0.036 CMfinder(seed): 0.008 Positive Predictive Value MCFold: 0.435 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RDfolder vs CMfinder(seed) Matthews Correlation Coefficient RDfolder: 0.122 CMfinder(seed): 0.080 Sensitivity RDfolder: 0.025 CMfinder(seed): 0.008 Positive Predictive Value RDfolder: 0.592 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(seed) vs Murlet(seed) Matthews Correlation Coefficient CMfinder(seed): 0.080 Murlet(seed): 0.079 Sensitivity CMfinder(seed): 0.008 Murlet(seed): 0.008 Positive Predictive Value CMfinder(seed): 0.757 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.00238364898467		+ CMfinder(seed) vs TurboFold(seed) Matthews Correlation Coefficient CMfinder(seed): 0.080 TurboFold(seed): 0.076 Sensitivity CMfinder(seed): 0.008 TurboFold(seed): 0.007 Positive Predictive Value CMfinder(seed): 0.757 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 1.83595875043e-07	+ CMfinder(seed) vs PPfold(seed) Matthews Correlation Coefficient CMfinder(seed): 0.080 PPfold(seed): 0.069 Sensitivity CMfinder(seed): 0.008 PPfold(seed): 0.006 Positive Predictive Value CMfinder(seed): 0.757 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(seed) vs Carnac(seed) Matthews Correlation Coefficient CMfinder(seed): 0.080 Carnac(seed): 0.066 Sensitivity CMfinder(seed): 0.008 Carnac(seed): 0.005 Positive Predictive Value CMfinder(seed): 0.757 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(seed) vs RNASampler(seed) Matthews Correlation Coefficient CMfinder(seed): 0.080 RNASampler(seed): 0.063 Sensitivity CMfinder(seed): 0.008 RNASampler(seed): 0.005 Positive Predictive Value CMfinder(seed): 0.757 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(seed) vs NanoFolder Matthews Correlation Coefficient CMfinder(seed): 0.080 NanoFolder: 0.052 Sensitivity CMfinder(seed): 0.008 NanoFolder: 0.016 Positive Predictive Value CMfinder(seed): 0.757 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(seed) vs Mastr(seed) Matthews Correlation Coefficient CMfinder(seed): 0.080 Mastr(seed): 0.051 Sensitivity CMfinder(seed): 0.008 Mastr(seed): 0.003 Positive Predictive Value CMfinder(seed): 0.757 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(seed) vs Multilign(seed) Matthews Correlation Coefficient CMfinder(seed): 0.080 Multilign(seed): 0.043 Sensitivity CMfinder(seed): 0.008 Multilign(seed): 0.003 Positive Predictive Value CMfinder(seed): 0.757 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
TurboFold(seed)	1987 ContextFold vs TurboFold(seed) Matthews Correlation Coefficient ContextFold: 0.680 TurboFold(seed): 0.076 Sensitivity ContextFold: 0.644 TurboFold(seed): 0.007 Positive Predictive Value ContextFold: 0.718 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs TurboFold(seed) Matthews Correlation Coefficient IPknot: 0.548 TurboFold(seed): 0.076 Sensitivity IPknot: 0.475 TurboFold(seed): 0.007 Positive Predictive Value IPknot: 0.632 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs TurboFold(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 TurboFold(seed): 0.076 Sensitivity PETfold_pre2.0(seed): 0.343 TurboFold(seed): 0.007 Positive Predictive Value PETfold_pre2.0(seed): 0.814 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs TurboFold(seed) Matthews Correlation Coefficient Contrafold: 0.508 TurboFold(seed): 0.076 Sensitivity Contrafold: 0.481 TurboFold(seed): 0.007 Positive Predictive Value Contrafold: 0.537 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs TurboFold(seed) Matthews Correlation Coefficient CentroidFold: 0.470 TurboFold(seed): 0.076 Sensitivity CentroidFold: 0.369 TurboFold(seed): 0.007 Positive Predictive Value CentroidFold: 0.600 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs TurboFold(seed) Matthews Correlation Coefficient Sfold: 0.469 TurboFold(seed): 0.076 Sensitivity Sfold: 0.412 TurboFold(seed): 0.007 Positive Predictive Value Sfold: 0.535 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs TurboFold(seed) Matthews Correlation Coefficient MaxExpect: 0.465 TurboFold(seed): 0.076 Sensitivity MaxExpect: 0.443 TurboFold(seed): 0.007 Positive Predictive Value MaxExpect: 0.488 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs TurboFold(seed) Matthews Correlation Coefficient ProbKnot: 0.460 TurboFold(seed): 0.076 Sensitivity ProbKnot: 0.446 TurboFold(seed): 0.007 Positive Predictive Value ProbKnot: 0.475 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs TurboFold(seed) Matthews Correlation Coefficient UNAFold: 0.445 TurboFold(seed): 0.076 Sensitivity UNAFold: 0.445 TurboFold(seed): 0.007 Positive Predictive Value UNAFold: 0.446 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs TurboFold(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 TurboFold(seed): 0.076 Sensitivity CentroidAlifold(seed): 0.213 TurboFold(seed): 0.007 Positive Predictive Value CentroidAlifold(seed): 0.901 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs TurboFold(seed) Matthews Correlation Coefficient Fold: 0.437 TurboFold(seed): 0.076 Sensitivity Fold: 0.432 TurboFold(seed): 0.007 Positive Predictive Value Fold: 0.444 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs TurboFold(seed) Matthews Correlation Coefficient RNAfold: 0.429 TurboFold(seed): 0.076 Sensitivity RNAfold: 0.422 TurboFold(seed): 0.007 Positive Predictive Value RNAfold: 0.437 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs TurboFold(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 TurboFold(seed): 0.076 Sensitivity CentroidHomfold‑LAST: 0.216 TurboFold(seed): 0.007 Positive Predictive Value CentroidHomfold‑LAST: 0.850 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs TurboFold(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 TurboFold(seed): 0.076 Sensitivity PETfold_pre2.0(20): 0.211 TurboFold(seed): 0.007 Positive Predictive Value PETfold_pre2.0(20): 0.807 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs TurboFold(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 TurboFold(seed): 0.076 Sensitivity CentroidAlifold(20): 0.190 TurboFold(seed): 0.007 Positive Predictive Value CentroidAlifold(20): 0.891 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs TurboFold(seed) Matthews Correlation Coefficient PknotsRG: 0.386 TurboFold(seed): 0.076 Sensitivity PknotsRG: 0.320 TurboFold(seed): 0.007 Positive Predictive Value PknotsRG: 0.465 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs TurboFold(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 TurboFold(seed): 0.076 Sensitivity MXScarna(seed): 0.196 TurboFold(seed): 0.007 Positive Predictive Value MXScarna(seed): 0.753 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs TurboFold(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 TurboFold(seed): 0.076 Sensitivity RNAalifold(20): 0.185 TurboFold(seed): 0.007 Positive Predictive Value RNAalifold(20): 0.787 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs TurboFold(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.375 TurboFold(seed): 0.076 Sensitivity RNAalifold(seed): 0.169 TurboFold(seed): 0.007 Positive Predictive Value RNAalifold(seed): 0.835 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs TurboFold(seed) Matthews Correlation Coefficient Afold: 0.358 TurboFold(seed): 0.076 Sensitivity Afold: 0.295 TurboFold(seed): 0.007 Positive Predictive Value Afold: 0.434 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs TurboFold(seed) Matthews Correlation Coefficient MXScarna(20): 0.359 TurboFold(seed): 0.076 Sensitivity MXScarna(20): 0.181 TurboFold(seed): 0.007 Positive Predictive Value MXScarna(20): 0.710 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs TurboFold(seed) Matthews Correlation Coefficient CRWrnafold: 0.346 TurboFold(seed): 0.076 Sensitivity CRWrnafold: 0.275 TurboFold(seed): 0.007 Positive Predictive Value CRWrnafold: 0.435 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs TurboFold(seed) Matthews Correlation Coefficient RNAsubopt: 0.336 TurboFold(seed): 0.076 Sensitivity RNAsubopt: 0.217 TurboFold(seed): 0.007 Positive Predictive Value RNAsubopt: 0.521 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs TurboFold(seed) Matthews Correlation Coefficient McQFold: 0.314 TurboFold(seed): 0.076 Sensitivity McQFold: 0.205 TurboFold(seed): 0.007 Positive Predictive Value McQFold: 0.480 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs TurboFold(seed) Matthews Correlation Coefficient TurboFold(20): 0.301 TurboFold(seed): 0.076 Sensitivity TurboFold(20): 0.108 TurboFold(seed): 0.007 Positive Predictive Value TurboFold(20): 0.837 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs TurboFold(seed) Matthews Correlation Coefficient PPfold(20): 0.298 TurboFold(seed): 0.076 Sensitivity PPfold(20): 0.101 TurboFold(seed): 0.007 Positive Predictive Value PPfold(20): 0.879 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs TurboFold(seed) Matthews Correlation Coefficient RNAshapes: 0.295 TurboFold(seed): 0.076 Sensitivity RNAshapes: 0.180 TurboFold(seed): 0.007 Positive Predictive Value RNAshapes: 0.484 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs TurboFold(seed) Matthews Correlation Coefficient Carnac(20): 0.288 TurboFold(seed): 0.076 Sensitivity Carnac(20): 0.093 TurboFold(seed): 0.007 Positive Predictive Value Carnac(20): 0.892 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs TurboFold(seed) Matthews Correlation Coefficient RNASLOpt: 0.281 TurboFold(seed): 0.076 Sensitivity RNASLOpt: 0.158 TurboFold(seed): 0.007 Positive Predictive Value RNASLOpt: 0.502 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs TurboFold(seed) Matthews Correlation Coefficient RSpredict(20): 0.270 TurboFold(seed): 0.076 Sensitivity RSpredict(20): 0.124 TurboFold(seed): 0.007 Positive Predictive Value RSpredict(20): 0.590 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs TurboFold(seed) Matthews Correlation Coefficient Multilign(20): 0.251 TurboFold(seed): 0.076 Sensitivity Multilign(20): 0.083 TurboFold(seed): 0.007 Positive Predictive Value Multilign(20): 0.762 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs TurboFold(seed) Matthews Correlation Coefficient RNAwolf: 0.251 TurboFold(seed): 0.076 Sensitivity RNAwolf: 0.191 TurboFold(seed): 0.007 Positive Predictive Value RNAwolf: 0.330 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs TurboFold(seed) Matthews Correlation Coefficient Murlet(20): 0.230 TurboFold(seed): 0.076 Sensitivity Murlet(20): 0.067 TurboFold(seed): 0.007 Positive Predictive Value Murlet(20): 0.787 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs TurboFold(seed) Matthews Correlation Coefficient Vsfold4: 0.217 TurboFold(seed): 0.076 Sensitivity Vsfold4: 0.125 TurboFold(seed): 0.007 Positive Predictive Value Vsfold4: 0.378 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold5 vs TurboFold(seed) Matthews Correlation Coefficient Vsfold5: 0.211 TurboFold(seed): 0.076 Sensitivity Vsfold5: 0.125 TurboFold(seed): 0.007 Positive Predictive Value Vsfold5: 0.359 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(seed) vs TurboFold(seed) Matthews Correlation Coefficient RSpredict(seed): 0.212 TurboFold(seed): 0.076 Sensitivity RSpredict(seed): 0.075 TurboFold(seed): 0.007 Positive Predictive Value RSpredict(seed): 0.597 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(20) vs TurboFold(seed) Matthews Correlation Coefficient CMfinder(20): 0.210 TurboFold(seed): 0.076 Sensitivity CMfinder(20): 0.055 TurboFold(seed): 0.007 Positive Predictive Value CMfinder(20): 0.794 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 HotKnots vs TurboFold(seed) Matthews Correlation Coefficient HotKnots: 0.179 TurboFold(seed): 0.076 Sensitivity HotKnots: 0.051 TurboFold(seed): 0.007 Positive Predictive Value HotKnots: 0.624 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASampler(20) vs TurboFold(seed) Matthews Correlation Coefficient RNASampler(20): 0.176 TurboFold(seed): 0.076 Sensitivity RNASampler(20): 0.035 TurboFold(seed): 0.007 Positive Predictive Value RNASampler(20): 0.877 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Cylofold vs TurboFold(seed) Matthews Correlation Coefficient Cylofold: 0.155 TurboFold(seed): 0.076 Sensitivity Cylofold: 0.040 TurboFold(seed): 0.007 Positive Predictive Value Cylofold: 0.606 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Pknots vs TurboFold(seed) Matthews Correlation Coefficient Pknots: 0.143 TurboFold(seed): 0.076 Sensitivity Pknots: 0.033 TurboFold(seed): 0.007 Positive Predictive Value Pknots: 0.624 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Mastr(20) vs TurboFold(seed) Matthews Correlation Coefficient Mastr(20): 0.134 TurboFold(seed): 0.076 Sensitivity Mastr(20): 0.023 TurboFold(seed): 0.007 Positive Predictive Value Mastr(20): 0.790 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Alterna vs TurboFold(seed) Matthews Correlation Coefficient Alterna: 0.129 TurboFold(seed): 0.076 Sensitivity Alterna: 0.030 TurboFold(seed): 0.007 Positive Predictive Value Alterna: 0.566 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MCFold vs TurboFold(seed) Matthews Correlation Coefficient MCFold: 0.125 TurboFold(seed): 0.076 Sensitivity MCFold: 0.036 TurboFold(seed): 0.007 Positive Predictive Value MCFold: 0.435 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RDfolder vs TurboFold(seed) Matthews Correlation Coefficient RDfolder: 0.122 TurboFold(seed): 0.076 Sensitivity RDfolder: 0.025 TurboFold(seed): 0.007 Positive Predictive Value RDfolder: 0.592 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(seed) vs TurboFold(seed) Matthews Correlation Coefficient Murlet(seed): 0.079 TurboFold(seed): 0.076 Sensitivity Murlet(seed): 0.008 TurboFold(seed): 0.007 Positive Predictive Value Murlet(seed): 0.811 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 5.5212650266e-05	1987 CMfinder(seed) vs TurboFold(seed) Matthews Correlation Coefficient CMfinder(seed): 0.080 TurboFold(seed): 0.076 Sensitivity CMfinder(seed): 0.008 TurboFold(seed): 0.007 Positive Predictive Value CMfinder(seed): 0.757 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 1.83595875043e-07		+ TurboFold(seed) vs PPfold(seed) Matthews Correlation Coefficient TurboFold(seed): 0.076 PPfold(seed): 0.069 Sensitivity TurboFold(seed): 0.007 PPfold(seed): 0.006 Positive Predictive Value TurboFold(seed): 0.822 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(seed) vs Carnac(seed) Matthews Correlation Coefficient TurboFold(seed): 0.076 Carnac(seed): 0.066 Sensitivity TurboFold(seed): 0.007 Carnac(seed): 0.005 Positive Predictive Value TurboFold(seed): 0.822 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(seed) vs RNASampler(seed) Matthews Correlation Coefficient TurboFold(seed): 0.076 RNASampler(seed): 0.063 Sensitivity TurboFold(seed): 0.007 RNASampler(seed): 0.005 Positive Predictive Value TurboFold(seed): 0.822 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(seed) vs NanoFolder Matthews Correlation Coefficient TurboFold(seed): 0.076 NanoFolder: 0.052 Sensitivity TurboFold(seed): 0.007 NanoFolder: 0.016 Positive Predictive Value TurboFold(seed): 0.822 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(seed) vs Mastr(seed) Matthews Correlation Coefficient TurboFold(seed): 0.076 Mastr(seed): 0.051 Sensitivity TurboFold(seed): 0.007 Mastr(seed): 0.003 Positive Predictive Value TurboFold(seed): 0.822 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(seed) vs Multilign(seed) Matthews Correlation Coefficient TurboFold(seed): 0.076 Multilign(seed): 0.043 Sensitivity TurboFold(seed): 0.007 Multilign(seed): 0.003 Positive Predictive Value TurboFold(seed): 0.822 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
PPfold(seed)	1987 ContextFold vs PPfold(seed) Matthews Correlation Coefficient ContextFold: 0.680 PPfold(seed): 0.069 Sensitivity ContextFold: 0.644 PPfold(seed): 0.006 Positive Predictive Value ContextFold: 0.718 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs PPfold(seed) Matthews Correlation Coefficient IPknot: 0.548 PPfold(seed): 0.069 Sensitivity IPknot: 0.475 PPfold(seed): 0.006 Positive Predictive Value IPknot: 0.632 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs PPfold(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 PPfold(seed): 0.069 Sensitivity PETfold_pre2.0(seed): 0.343 PPfold(seed): 0.006 Positive Predictive Value PETfold_pre2.0(seed): 0.814 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs PPfold(seed) Matthews Correlation Coefficient Contrafold: 0.508 PPfold(seed): 0.069 Sensitivity Contrafold: 0.481 PPfold(seed): 0.006 Positive Predictive Value Contrafold: 0.537 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs PPfold(seed) Matthews Correlation Coefficient CentroidFold: 0.470 PPfold(seed): 0.069 Sensitivity CentroidFold: 0.369 PPfold(seed): 0.006 Positive Predictive Value CentroidFold: 0.600 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs PPfold(seed) Matthews Correlation Coefficient Sfold: 0.469 PPfold(seed): 0.069 Sensitivity Sfold: 0.412 PPfold(seed): 0.006 Positive Predictive Value Sfold: 0.535 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs PPfold(seed) Matthews Correlation Coefficient MaxExpect: 0.465 PPfold(seed): 0.069 Sensitivity MaxExpect: 0.443 PPfold(seed): 0.006 Positive Predictive Value MaxExpect: 0.488 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs PPfold(seed) Matthews Correlation Coefficient ProbKnot: 0.460 PPfold(seed): 0.069 Sensitivity ProbKnot: 0.446 PPfold(seed): 0.006 Positive Predictive Value ProbKnot: 0.475 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs PPfold(seed) Matthews Correlation Coefficient UNAFold: 0.445 PPfold(seed): 0.069 Sensitivity UNAFold: 0.445 PPfold(seed): 0.006 Positive Predictive Value UNAFold: 0.446 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs PPfold(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 PPfold(seed): 0.069 Sensitivity CentroidAlifold(seed): 0.213 PPfold(seed): 0.006 Positive Predictive Value CentroidAlifold(seed): 0.901 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs PPfold(seed) Matthews Correlation Coefficient Fold: 0.437 PPfold(seed): 0.069 Sensitivity Fold: 0.432 PPfold(seed): 0.006 Positive Predictive Value Fold: 0.444 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs PPfold(seed) Matthews Correlation Coefficient RNAfold: 0.429 PPfold(seed): 0.069 Sensitivity RNAfold: 0.422 PPfold(seed): 0.006 Positive Predictive Value RNAfold: 0.437 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs PPfold(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 PPfold(seed): 0.069 Sensitivity CentroidHomfold‑LAST: 0.216 PPfold(seed): 0.006 Positive Predictive Value CentroidHomfold‑LAST: 0.850 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs PPfold(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 PPfold(seed): 0.069 Sensitivity PETfold_pre2.0(20): 0.211 PPfold(seed): 0.006 Positive Predictive Value PETfold_pre2.0(20): 0.807 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs PPfold(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 PPfold(seed): 0.069 Sensitivity CentroidAlifold(20): 0.190 PPfold(seed): 0.006 Positive Predictive Value CentroidAlifold(20): 0.891 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs PPfold(seed) Matthews Correlation Coefficient PknotsRG: 0.386 PPfold(seed): 0.069 Sensitivity PknotsRG: 0.320 PPfold(seed): 0.006 Positive Predictive Value PknotsRG: 0.465 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs PPfold(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 PPfold(seed): 0.069 Sensitivity MXScarna(seed): 0.196 PPfold(seed): 0.006 Positive Predictive Value MXScarna(seed): 0.753 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs PPfold(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 PPfold(seed): 0.069 Sensitivity RNAalifold(20): 0.185 PPfold(seed): 0.006 Positive Predictive Value RNAalifold(20): 0.787 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs PPfold(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.375 PPfold(seed): 0.069 Sensitivity RNAalifold(seed): 0.169 PPfold(seed): 0.006 Positive Predictive Value RNAalifold(seed): 0.835 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs PPfold(seed) Matthews Correlation Coefficient Afold: 0.358 PPfold(seed): 0.069 Sensitivity Afold: 0.295 PPfold(seed): 0.006 Positive Predictive Value Afold: 0.434 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs PPfold(seed) Matthews Correlation Coefficient MXScarna(20): 0.359 PPfold(seed): 0.069 Sensitivity MXScarna(20): 0.181 PPfold(seed): 0.006 Positive Predictive Value MXScarna(20): 0.710 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs PPfold(seed) Matthews Correlation Coefficient CRWrnafold: 0.346 PPfold(seed): 0.069 Sensitivity CRWrnafold: 0.275 PPfold(seed): 0.006 Positive Predictive Value CRWrnafold: 0.435 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs PPfold(seed) Matthews Correlation Coefficient RNAsubopt: 0.336 PPfold(seed): 0.069 Sensitivity RNAsubopt: 0.217 PPfold(seed): 0.006 Positive Predictive Value RNAsubopt: 0.521 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs PPfold(seed) Matthews Correlation Coefficient McQFold: 0.314 PPfold(seed): 0.069 Sensitivity McQFold: 0.205 PPfold(seed): 0.006 Positive Predictive Value McQFold: 0.480 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs PPfold(seed) Matthews Correlation Coefficient TurboFold(20): 0.301 PPfold(seed): 0.069 Sensitivity TurboFold(20): 0.108 PPfold(seed): 0.006 Positive Predictive Value TurboFold(20): 0.837 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs PPfold(seed) Matthews Correlation Coefficient PPfold(20): 0.298 PPfold(seed): 0.069 Sensitivity PPfold(20): 0.101 PPfold(seed): 0.006 Positive Predictive Value PPfold(20): 0.879 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs PPfold(seed) Matthews Correlation Coefficient RNAshapes: 0.295 PPfold(seed): 0.069 Sensitivity RNAshapes: 0.180 PPfold(seed): 0.006 Positive Predictive Value RNAshapes: 0.484 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs PPfold(seed) Matthews Correlation Coefficient Carnac(20): 0.288 PPfold(seed): 0.069 Sensitivity Carnac(20): 0.093 PPfold(seed): 0.006 Positive Predictive Value Carnac(20): 0.892 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs PPfold(seed) Matthews Correlation Coefficient RNASLOpt: 0.281 PPfold(seed): 0.069 Sensitivity RNASLOpt: 0.158 PPfold(seed): 0.006 Positive Predictive Value RNASLOpt: 0.502 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs PPfold(seed) Matthews Correlation Coefficient RSpredict(20): 0.270 PPfold(seed): 0.069 Sensitivity RSpredict(20): 0.124 PPfold(seed): 0.006 Positive Predictive Value RSpredict(20): 0.590 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs PPfold(seed) Matthews Correlation Coefficient Multilign(20): 0.251 PPfold(seed): 0.069 Sensitivity Multilign(20): 0.083 PPfold(seed): 0.006 Positive Predictive Value Multilign(20): 0.762 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs PPfold(seed) Matthews Correlation Coefficient RNAwolf: 0.251 PPfold(seed): 0.069 Sensitivity RNAwolf: 0.191 PPfold(seed): 0.006 Positive Predictive Value RNAwolf: 0.330 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs PPfold(seed) Matthews Correlation Coefficient Murlet(20): 0.230 PPfold(seed): 0.069 Sensitivity Murlet(20): 0.067 PPfold(seed): 0.006 Positive Predictive Value Murlet(20): 0.787 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs PPfold(seed) Matthews Correlation Coefficient Vsfold4: 0.217 PPfold(seed): 0.069 Sensitivity Vsfold4: 0.125 PPfold(seed): 0.006 Positive Predictive Value Vsfold4: 0.378 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold5 vs PPfold(seed) Matthews Correlation Coefficient Vsfold5: 0.211 PPfold(seed): 0.069 Sensitivity Vsfold5: 0.125 PPfold(seed): 0.006 Positive Predictive Value Vsfold5: 0.359 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(seed) vs PPfold(seed) Matthews Correlation Coefficient RSpredict(seed): 0.212 PPfold(seed): 0.069 Sensitivity RSpredict(seed): 0.075 PPfold(seed): 0.006 Positive Predictive Value RSpredict(seed): 0.597 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(20) vs PPfold(seed) Matthews Correlation Coefficient CMfinder(20): 0.210 PPfold(seed): 0.069 Sensitivity CMfinder(20): 0.055 PPfold(seed): 0.006 Positive Predictive Value CMfinder(20): 0.794 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 HotKnots vs PPfold(seed) Matthews Correlation Coefficient HotKnots: 0.179 PPfold(seed): 0.069 Sensitivity HotKnots: 0.051 PPfold(seed): 0.006 Positive Predictive Value HotKnots: 0.624 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASampler(20) vs PPfold(seed) Matthews Correlation Coefficient RNASampler(20): 0.176 PPfold(seed): 0.069 Sensitivity RNASampler(20): 0.035 PPfold(seed): 0.006 Positive Predictive Value RNASampler(20): 0.877 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Cylofold vs PPfold(seed) Matthews Correlation Coefficient Cylofold: 0.155 PPfold(seed): 0.069 Sensitivity Cylofold: 0.040 PPfold(seed): 0.006 Positive Predictive Value Cylofold: 0.606 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Pknots vs PPfold(seed) Matthews Correlation Coefficient Pknots: 0.143 PPfold(seed): 0.069 Sensitivity Pknots: 0.033 PPfold(seed): 0.006 Positive Predictive Value Pknots: 0.624 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Mastr(20) vs PPfold(seed) Matthews Correlation Coefficient Mastr(20): 0.134 PPfold(seed): 0.069 Sensitivity Mastr(20): 0.023 PPfold(seed): 0.006 Positive Predictive Value Mastr(20): 0.790 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Alterna vs PPfold(seed) Matthews Correlation Coefficient Alterna: 0.129 PPfold(seed): 0.069 Sensitivity Alterna: 0.030 PPfold(seed): 0.006 Positive Predictive Value Alterna: 0.566 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MCFold vs PPfold(seed) Matthews Correlation Coefficient MCFold: 0.125 PPfold(seed): 0.069 Sensitivity MCFold: 0.036 PPfold(seed): 0.006 Positive Predictive Value MCFold: 0.435 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RDfolder vs PPfold(seed) Matthews Correlation Coefficient RDfolder: 0.122 PPfold(seed): 0.069 Sensitivity RDfolder: 0.025 PPfold(seed): 0.006 Positive Predictive Value RDfolder: 0.592 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(seed) vs PPfold(seed) Matthews Correlation Coefficient Murlet(seed): 0.079 PPfold(seed): 0.069 Sensitivity Murlet(seed): 0.008 PPfold(seed): 0.006 Positive Predictive Value Murlet(seed): 0.811 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(seed) vs PPfold(seed) Matthews Correlation Coefficient CMfinder(seed): 0.080 PPfold(seed): 0.069 Sensitivity CMfinder(seed): 0.008 PPfold(seed): 0.006 Positive Predictive Value CMfinder(seed): 0.757 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(seed) vs PPfold(seed) Matthews Correlation Coefficient TurboFold(seed): 0.076 PPfold(seed): 0.069 Sensitivity TurboFold(seed): 0.007 PPfold(seed): 0.006 Positive Predictive Value TurboFold(seed): 0.822 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ PPfold(seed) vs Carnac(seed) Matthews Correlation Coefficient PPfold(seed): 0.069 Carnac(seed): 0.066 Sensitivity PPfold(seed): 0.006 Carnac(seed): 0.005 Positive Predictive Value PPfold(seed): 0.794 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.85233844192e-08	+ PPfold(seed) vs RNASampler(seed) Matthews Correlation Coefficient PPfold(seed): 0.069 RNASampler(seed): 0.063 Sensitivity PPfold(seed): 0.006 RNASampler(seed): 0.005 Positive Predictive Value PPfold(seed): 0.794 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(seed) vs NanoFolder Matthews Correlation Coefficient PPfold(seed): 0.069 NanoFolder: 0.052 Sensitivity PPfold(seed): 0.006 NanoFolder: 0.016 Positive Predictive Value PPfold(seed): 0.794 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(seed) vs Mastr(seed) Matthews Correlation Coefficient PPfold(seed): 0.069 Mastr(seed): 0.051 Sensitivity PPfold(seed): 0.006 Mastr(seed): 0.003 Positive Predictive Value PPfold(seed): 0.794 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(seed) vs Multilign(seed) Matthews Correlation Coefficient PPfold(seed): 0.069 Multilign(seed): 0.043 Sensitivity PPfold(seed): 0.006 Multilign(seed): 0.003 Positive Predictive Value PPfold(seed): 0.794 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
Carnac(seed)	1987 ContextFold vs Carnac(seed) Matthews Correlation Coefficient ContextFold: 0.680 Carnac(seed): 0.066 Sensitivity ContextFold: 0.644 Carnac(seed): 0.005 Positive Predictive Value ContextFold: 0.718 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs Carnac(seed) Matthews Correlation Coefficient IPknot: 0.548 Carnac(seed): 0.066 Sensitivity IPknot: 0.475 Carnac(seed): 0.005 Positive Predictive Value IPknot: 0.632 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs Carnac(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Carnac(seed): 0.066 Sensitivity PETfold_pre2.0(seed): 0.343 Carnac(seed): 0.005 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs Carnac(seed) Matthews Correlation Coefficient Contrafold: 0.508 Carnac(seed): 0.066 Sensitivity Contrafold: 0.481 Carnac(seed): 0.005 Positive Predictive Value Contrafold: 0.537 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs Carnac(seed) Matthews Correlation Coefficient CentroidFold: 0.470 Carnac(seed): 0.066 Sensitivity CentroidFold: 0.369 Carnac(seed): 0.005 Positive Predictive Value CentroidFold: 0.600 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs Carnac(seed) Matthews Correlation Coefficient Sfold: 0.469 Carnac(seed): 0.066 Sensitivity Sfold: 0.412 Carnac(seed): 0.005 Positive Predictive Value Sfold: 0.535 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs Carnac(seed) Matthews Correlation Coefficient MaxExpect: 0.465 Carnac(seed): 0.066 Sensitivity MaxExpect: 0.443 Carnac(seed): 0.005 Positive Predictive Value MaxExpect: 0.488 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs Carnac(seed) Matthews Correlation Coefficient ProbKnot: 0.460 Carnac(seed): 0.066 Sensitivity ProbKnot: 0.446 Carnac(seed): 0.005 Positive Predictive Value ProbKnot: 0.475 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs Carnac(seed) Matthews Correlation Coefficient UNAFold: 0.445 Carnac(seed): 0.066 Sensitivity UNAFold: 0.445 Carnac(seed): 0.005 Positive Predictive Value UNAFold: 0.446 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs Carnac(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Carnac(seed): 0.066 Sensitivity CentroidAlifold(seed): 0.213 Carnac(seed): 0.005 Positive Predictive Value CentroidAlifold(seed): 0.901 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs Carnac(seed) Matthews Correlation Coefficient Fold: 0.437 Carnac(seed): 0.066 Sensitivity Fold: 0.432 Carnac(seed): 0.005 Positive Predictive Value Fold: 0.444 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs Carnac(seed) Matthews Correlation Coefficient RNAfold: 0.429 Carnac(seed): 0.066 Sensitivity RNAfold: 0.422 Carnac(seed): 0.005 Positive Predictive Value RNAfold: 0.437 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs Carnac(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Carnac(seed): 0.066 Sensitivity CentroidHomfold‑LAST: 0.216 Carnac(seed): 0.005 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs Carnac(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Carnac(seed): 0.066 Sensitivity PETfold_pre2.0(20): 0.211 Carnac(seed): 0.005 Positive Predictive Value PETfold_pre2.0(20): 0.807 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs Carnac(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Carnac(seed): 0.066 Sensitivity CentroidAlifold(20): 0.190 Carnac(seed): 0.005 Positive Predictive Value CentroidAlifold(20): 0.891 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs Carnac(seed) Matthews Correlation Coefficient PknotsRG: 0.386 Carnac(seed): 0.066 Sensitivity PknotsRG: 0.320 Carnac(seed): 0.005 Positive Predictive Value PknotsRG: 0.465 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs Carnac(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 Carnac(seed): 0.066 Sensitivity MXScarna(seed): 0.196 Carnac(seed): 0.005 Positive Predictive Value MXScarna(seed): 0.753 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs Carnac(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 Carnac(seed): 0.066 Sensitivity RNAalifold(20): 0.185 Carnac(seed): 0.005 Positive Predictive Value RNAalifold(20): 0.787 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs Carnac(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.375 Carnac(seed): 0.066 Sensitivity RNAalifold(seed): 0.169 Carnac(seed): 0.005 Positive Predictive Value RNAalifold(seed): 0.835 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs Carnac(seed) Matthews Correlation Coefficient Afold: 0.358 Carnac(seed): 0.066 Sensitivity Afold: 0.295 Carnac(seed): 0.005 Positive Predictive Value Afold: 0.434 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs Carnac(seed) Matthews Correlation Coefficient MXScarna(20): 0.359 Carnac(seed): 0.066 Sensitivity MXScarna(20): 0.181 Carnac(seed): 0.005 Positive Predictive Value MXScarna(20): 0.710 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs Carnac(seed) Matthews Correlation Coefficient CRWrnafold: 0.346 Carnac(seed): 0.066 Sensitivity CRWrnafold: 0.275 Carnac(seed): 0.005 Positive Predictive Value CRWrnafold: 0.435 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs Carnac(seed) Matthews Correlation Coefficient RNAsubopt: 0.336 Carnac(seed): 0.066 Sensitivity RNAsubopt: 0.217 Carnac(seed): 0.005 Positive Predictive Value RNAsubopt: 0.521 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs Carnac(seed) Matthews Correlation Coefficient McQFold: 0.314 Carnac(seed): 0.066 Sensitivity McQFold: 0.205 Carnac(seed): 0.005 Positive Predictive Value McQFold: 0.480 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs Carnac(seed) Matthews Correlation Coefficient TurboFold(20): 0.301 Carnac(seed): 0.066 Sensitivity TurboFold(20): 0.108 Carnac(seed): 0.005 Positive Predictive Value TurboFold(20): 0.837 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs Carnac(seed) Matthews Correlation Coefficient PPfold(20): 0.298 Carnac(seed): 0.066 Sensitivity PPfold(20): 0.101 Carnac(seed): 0.005 Positive Predictive Value PPfold(20): 0.879 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs Carnac(seed) Matthews Correlation Coefficient RNAshapes: 0.295 Carnac(seed): 0.066 Sensitivity RNAshapes: 0.180 Carnac(seed): 0.005 Positive Predictive Value RNAshapes: 0.484 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs Carnac(seed) Matthews Correlation Coefficient Carnac(20): 0.288 Carnac(seed): 0.066 Sensitivity Carnac(20): 0.093 Carnac(seed): 0.005 Positive Predictive Value Carnac(20): 0.892 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs Carnac(seed) Matthews Correlation Coefficient RNASLOpt: 0.281 Carnac(seed): 0.066 Sensitivity RNASLOpt: 0.158 Carnac(seed): 0.005 Positive Predictive Value RNASLOpt: 0.502 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs Carnac(seed) Matthews Correlation Coefficient RSpredict(20): 0.270 Carnac(seed): 0.066 Sensitivity RSpredict(20): 0.124 Carnac(seed): 0.005 Positive Predictive Value RSpredict(20): 0.590 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs Carnac(seed) Matthews Correlation Coefficient Multilign(20): 0.251 Carnac(seed): 0.066 Sensitivity Multilign(20): 0.083 Carnac(seed): 0.005 Positive Predictive Value Multilign(20): 0.762 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs Carnac(seed) Matthews Correlation Coefficient RNAwolf: 0.251 Carnac(seed): 0.066 Sensitivity RNAwolf: 0.191 Carnac(seed): 0.005 Positive Predictive Value RNAwolf: 0.330 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs Carnac(seed) Matthews Correlation Coefficient Murlet(20): 0.230 Carnac(seed): 0.066 Sensitivity Murlet(20): 0.067 Carnac(seed): 0.005 Positive Predictive Value Murlet(20): 0.787 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs Carnac(seed) Matthews Correlation Coefficient Vsfold4: 0.217 Carnac(seed): 0.066 Sensitivity Vsfold4: 0.125 Carnac(seed): 0.005 Positive Predictive Value Vsfold4: 0.378 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold5 vs Carnac(seed) Matthews Correlation Coefficient Vsfold5: 0.211 Carnac(seed): 0.066 Sensitivity Vsfold5: 0.125 Carnac(seed): 0.005 Positive Predictive Value Vsfold5: 0.359 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(seed) vs Carnac(seed) Matthews Correlation Coefficient RSpredict(seed): 0.212 Carnac(seed): 0.066 Sensitivity RSpredict(seed): 0.075 Carnac(seed): 0.005 Positive Predictive Value RSpredict(seed): 0.597 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(20) vs Carnac(seed) Matthews Correlation Coefficient CMfinder(20): 0.210 Carnac(seed): 0.066 Sensitivity CMfinder(20): 0.055 Carnac(seed): 0.005 Positive Predictive Value CMfinder(20): 0.794 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 HotKnots vs Carnac(seed) Matthews Correlation Coefficient HotKnots: 0.179 Carnac(seed): 0.066 Sensitivity HotKnots: 0.051 Carnac(seed): 0.005 Positive Predictive Value HotKnots: 0.624 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASampler(20) vs Carnac(seed) Matthews Correlation Coefficient RNASampler(20): 0.176 Carnac(seed): 0.066 Sensitivity RNASampler(20): 0.035 Carnac(seed): 0.005 Positive Predictive Value RNASampler(20): 0.877 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Cylofold vs Carnac(seed) Matthews Correlation Coefficient Cylofold: 0.155 Carnac(seed): 0.066 Sensitivity Cylofold: 0.040 Carnac(seed): 0.005 Positive Predictive Value Cylofold: 0.606 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Pknots vs Carnac(seed) Matthews Correlation Coefficient Pknots: 0.143 Carnac(seed): 0.066 Sensitivity Pknots: 0.033 Carnac(seed): 0.005 Positive Predictive Value Pknots: 0.624 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Mastr(20) vs Carnac(seed) Matthews Correlation Coefficient Mastr(20): 0.134 Carnac(seed): 0.066 Sensitivity Mastr(20): 0.023 Carnac(seed): 0.005 Positive Predictive Value Mastr(20): 0.790 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Alterna vs Carnac(seed) Matthews Correlation Coefficient Alterna: 0.129 Carnac(seed): 0.066 Sensitivity Alterna: 0.030 Carnac(seed): 0.005 Positive Predictive Value Alterna: 0.566 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MCFold vs Carnac(seed) Matthews Correlation Coefficient MCFold: 0.125 Carnac(seed): 0.066 Sensitivity MCFold: 0.036 Carnac(seed): 0.005 Positive Predictive Value MCFold: 0.435 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RDfolder vs Carnac(seed) Matthews Correlation Coefficient RDfolder: 0.122 Carnac(seed): 0.066 Sensitivity RDfolder: 0.025 Carnac(seed): 0.005 Positive Predictive Value RDfolder: 0.592 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(seed) vs Carnac(seed) Matthews Correlation Coefficient Murlet(seed): 0.079 Carnac(seed): 0.066 Sensitivity Murlet(seed): 0.008 Carnac(seed): 0.005 Positive Predictive Value Murlet(seed): 0.811 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(seed) vs Carnac(seed) Matthews Correlation Coefficient CMfinder(seed): 0.080 Carnac(seed): 0.066 Sensitivity CMfinder(seed): 0.008 Carnac(seed): 0.005 Positive Predictive Value CMfinder(seed): 0.757 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(seed) vs Carnac(seed) Matthews Correlation Coefficient TurboFold(seed): 0.076 Carnac(seed): 0.066 Sensitivity TurboFold(seed): 0.007 Carnac(seed): 0.005 Positive Predictive Value TurboFold(seed): 0.822 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(seed) vs Carnac(seed) Matthews Correlation Coefficient PPfold(seed): 0.069 Carnac(seed): 0.066 Sensitivity PPfold(seed): 0.006 Carnac(seed): 0.005 Positive Predictive Value PPfold(seed): 0.794 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.85233844192e-08		+ Carnac(seed) vs RNASampler(seed) Matthews Correlation Coefficient Carnac(seed): 0.066 RNASampler(seed): 0.063 Sensitivity Carnac(seed): 0.005 RNASampler(seed): 0.005 Positive Predictive Value Carnac(seed): 0.867 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.000857786362802	+ Carnac(seed) vs NanoFolder Matthews Correlation Coefficient Carnac(seed): 0.066 NanoFolder: 0.052 Sensitivity Carnac(seed): 0.005 NanoFolder: 0.016 Positive Predictive Value Carnac(seed): 0.867 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(seed) vs Mastr(seed) Matthews Correlation Coefficient Carnac(seed): 0.066 Mastr(seed): 0.051 Sensitivity Carnac(seed): 0.005 Mastr(seed): 0.003 Positive Predictive Value Carnac(seed): 0.867 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(seed) vs Multilign(seed) Matthews Correlation Coefficient Carnac(seed): 0.066 Multilign(seed): 0.043 Sensitivity Carnac(seed): 0.005 Multilign(seed): 0.003 Positive Predictive Value Carnac(seed): 0.867 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
RNASampler(seed)	1987 ContextFold vs RNASampler(seed) Matthews Correlation Coefficient ContextFold: 0.680 RNASampler(seed): 0.063 Sensitivity ContextFold: 0.644 RNASampler(seed): 0.005 Positive Predictive Value ContextFold: 0.718 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs RNASampler(seed) Matthews Correlation Coefficient IPknot: 0.548 RNASampler(seed): 0.063 Sensitivity IPknot: 0.475 RNASampler(seed): 0.005 Positive Predictive Value IPknot: 0.632 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs RNASampler(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 RNASampler(seed): 0.063 Sensitivity PETfold_pre2.0(seed): 0.343 RNASampler(seed): 0.005 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs RNASampler(seed) Matthews Correlation Coefficient Contrafold: 0.508 RNASampler(seed): 0.063 Sensitivity Contrafold: 0.481 RNASampler(seed): 0.005 Positive Predictive Value Contrafold: 0.537 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs RNASampler(seed) Matthews Correlation Coefficient CentroidFold: 0.470 RNASampler(seed): 0.063 Sensitivity CentroidFold: 0.369 RNASampler(seed): 0.005 Positive Predictive Value CentroidFold: 0.600 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs RNASampler(seed) Matthews Correlation Coefficient Sfold: 0.469 RNASampler(seed): 0.063 Sensitivity Sfold: 0.412 RNASampler(seed): 0.005 Positive Predictive Value Sfold: 0.535 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs RNASampler(seed) Matthews Correlation Coefficient MaxExpect: 0.465 RNASampler(seed): 0.063 Sensitivity MaxExpect: 0.443 RNASampler(seed): 0.005 Positive Predictive Value MaxExpect: 0.488 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs RNASampler(seed) Matthews Correlation Coefficient ProbKnot: 0.460 RNASampler(seed): 0.063 Sensitivity ProbKnot: 0.446 RNASampler(seed): 0.005 Positive Predictive Value ProbKnot: 0.475 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs RNASampler(seed) Matthews Correlation Coefficient UNAFold: 0.445 RNASampler(seed): 0.063 Sensitivity UNAFold: 0.445 RNASampler(seed): 0.005 Positive Predictive Value UNAFold: 0.446 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs RNASampler(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 RNASampler(seed): 0.063 Sensitivity CentroidAlifold(seed): 0.213 RNASampler(seed): 0.005 Positive Predictive Value CentroidAlifold(seed): 0.901 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs RNASampler(seed) Matthews Correlation Coefficient Fold: 0.437 RNASampler(seed): 0.063 Sensitivity Fold: 0.432 RNASampler(seed): 0.005 Positive Predictive Value Fold: 0.444 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs RNASampler(seed) Matthews Correlation Coefficient RNAfold: 0.429 RNASampler(seed): 0.063 Sensitivity RNAfold: 0.422 RNASampler(seed): 0.005 Positive Predictive Value RNAfold: 0.437 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs RNASampler(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 RNASampler(seed): 0.063 Sensitivity CentroidHomfold‑LAST: 0.216 RNASampler(seed): 0.005 Positive Predictive Value CentroidHomfold‑LAST: 0.850 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs RNASampler(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 RNASampler(seed): 0.063 Sensitivity PETfold_pre2.0(20): 0.211 RNASampler(seed): 0.005 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs RNASampler(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 RNASampler(seed): 0.063 Sensitivity CentroidAlifold(20): 0.190 RNASampler(seed): 0.005 Positive Predictive Value CentroidAlifold(20): 0.891 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs RNASampler(seed) Matthews Correlation Coefficient PknotsRG: 0.386 RNASampler(seed): 0.063 Sensitivity PknotsRG: 0.320 RNASampler(seed): 0.005 Positive Predictive Value PknotsRG: 0.465 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs RNASampler(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 RNASampler(seed): 0.063 Sensitivity MXScarna(seed): 0.196 RNASampler(seed): 0.005 Positive Predictive Value MXScarna(seed): 0.753 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs RNASampler(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 RNASampler(seed): 0.063 Sensitivity RNAalifold(20): 0.185 RNASampler(seed): 0.005 Positive Predictive Value RNAalifold(20): 0.787 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs RNASampler(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.375 RNASampler(seed): 0.063 Sensitivity RNAalifold(seed): 0.169 RNASampler(seed): 0.005 Positive Predictive Value RNAalifold(seed): 0.835 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs RNASampler(seed) Matthews Correlation Coefficient Afold: 0.358 RNASampler(seed): 0.063 Sensitivity Afold: 0.295 RNASampler(seed): 0.005 Positive Predictive Value Afold: 0.434 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs RNASampler(seed) Matthews Correlation Coefficient MXScarna(20): 0.359 RNASampler(seed): 0.063 Sensitivity MXScarna(20): 0.181 RNASampler(seed): 0.005 Positive Predictive Value MXScarna(20): 0.710 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs RNASampler(seed) Matthews Correlation Coefficient CRWrnafold: 0.346 RNASampler(seed): 0.063 Sensitivity CRWrnafold: 0.275 RNASampler(seed): 0.005 Positive Predictive Value CRWrnafold: 0.435 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs RNASampler(seed) Matthews Correlation Coefficient RNAsubopt: 0.336 RNASampler(seed): 0.063 Sensitivity RNAsubopt: 0.217 RNASampler(seed): 0.005 Positive Predictive Value RNAsubopt: 0.521 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs RNASampler(seed) Matthews Correlation Coefficient McQFold: 0.314 RNASampler(seed): 0.063 Sensitivity McQFold: 0.205 RNASampler(seed): 0.005 Positive Predictive Value McQFold: 0.480 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs RNASampler(seed) Matthews Correlation Coefficient TurboFold(20): 0.301 RNASampler(seed): 0.063 Sensitivity TurboFold(20): 0.108 RNASampler(seed): 0.005 Positive Predictive Value TurboFold(20): 0.837 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs RNASampler(seed) Matthews Correlation Coefficient PPfold(20): 0.298 RNASampler(seed): 0.063 Sensitivity PPfold(20): 0.101 RNASampler(seed): 0.005 Positive Predictive Value PPfold(20): 0.879 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs RNASampler(seed) Matthews Correlation Coefficient RNAshapes: 0.295 RNASampler(seed): 0.063 Sensitivity RNAshapes: 0.180 RNASampler(seed): 0.005 Positive Predictive Value RNAshapes: 0.484 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs RNASampler(seed) Matthews Correlation Coefficient Carnac(20): 0.288 RNASampler(seed): 0.063 Sensitivity Carnac(20): 0.093 RNASampler(seed): 0.005 Positive Predictive Value Carnac(20): 0.892 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs RNASampler(seed) Matthews Correlation Coefficient RNASLOpt: 0.281 RNASampler(seed): 0.063 Sensitivity RNASLOpt: 0.158 RNASampler(seed): 0.005 Positive Predictive Value RNASLOpt: 0.502 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs RNASampler(seed) Matthews Correlation Coefficient RSpredict(20): 0.270 RNASampler(seed): 0.063 Sensitivity RSpredict(20): 0.124 RNASampler(seed): 0.005 Positive Predictive Value RSpredict(20): 0.590 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs RNASampler(seed) Matthews Correlation Coefficient Multilign(20): 0.251 RNASampler(seed): 0.063 Sensitivity Multilign(20): 0.083 RNASampler(seed): 0.005 Positive Predictive Value Multilign(20): 0.762 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs RNASampler(seed) Matthews Correlation Coefficient RNAwolf: 0.251 RNASampler(seed): 0.063 Sensitivity RNAwolf: 0.191 RNASampler(seed): 0.005 Positive Predictive Value RNAwolf: 0.330 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs RNASampler(seed) Matthews Correlation Coefficient Murlet(20): 0.230 RNASampler(seed): 0.063 Sensitivity Murlet(20): 0.067 RNASampler(seed): 0.005 Positive Predictive Value Murlet(20): 0.787 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs RNASampler(seed) Matthews Correlation Coefficient Vsfold4: 0.217 RNASampler(seed): 0.063 Sensitivity Vsfold4: 0.125 RNASampler(seed): 0.005 Positive Predictive Value Vsfold4: 0.378 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold5 vs RNASampler(seed) Matthews Correlation Coefficient Vsfold5: 0.211 RNASampler(seed): 0.063 Sensitivity Vsfold5: 0.125 RNASampler(seed): 0.005 Positive Predictive Value Vsfold5: 0.359 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(seed) vs RNASampler(seed) Matthews Correlation Coefficient RSpredict(seed): 0.212 RNASampler(seed): 0.063 Sensitivity RSpredict(seed): 0.075 RNASampler(seed): 0.005 Positive Predictive Value RSpredict(seed): 0.597 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(20) vs RNASampler(seed) Matthews Correlation Coefficient CMfinder(20): 0.210 RNASampler(seed): 0.063 Sensitivity CMfinder(20): 0.055 RNASampler(seed): 0.005 Positive Predictive Value CMfinder(20): 0.794 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 HotKnots vs RNASampler(seed) Matthews Correlation Coefficient HotKnots: 0.179 RNASampler(seed): 0.063 Sensitivity HotKnots: 0.051 RNASampler(seed): 0.005 Positive Predictive Value HotKnots: 0.624 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASampler(20) vs RNASampler(seed) Matthews Correlation Coefficient RNASampler(20): 0.176 RNASampler(seed): 0.063 Sensitivity RNASampler(20): 0.035 RNASampler(seed): 0.005 Positive Predictive Value RNASampler(20): 0.877 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Cylofold vs RNASampler(seed) Matthews Correlation Coefficient Cylofold: 0.155 RNASampler(seed): 0.063 Sensitivity Cylofold: 0.040 RNASampler(seed): 0.005 Positive Predictive Value Cylofold: 0.606 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Pknots vs RNASampler(seed) Matthews Correlation Coefficient Pknots: 0.143 RNASampler(seed): 0.063 Sensitivity Pknots: 0.033 RNASampler(seed): 0.005 Positive Predictive Value Pknots: 0.624 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Mastr(20) vs RNASampler(seed) Matthews Correlation Coefficient Mastr(20): 0.134 RNASampler(seed): 0.063 Sensitivity Mastr(20): 0.023 RNASampler(seed): 0.005 Positive Predictive Value Mastr(20): 0.790 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Alterna vs RNASampler(seed) Matthews Correlation Coefficient Alterna: 0.129 RNASampler(seed): 0.063 Sensitivity Alterna: 0.030 RNASampler(seed): 0.005 Positive Predictive Value Alterna: 0.566 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MCFold vs RNASampler(seed) Matthews Correlation Coefficient MCFold: 0.125 RNASampler(seed): 0.063 Sensitivity MCFold: 0.036 RNASampler(seed): 0.005 Positive Predictive Value MCFold: 0.435 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RDfolder vs RNASampler(seed) Matthews Correlation Coefficient RDfolder: 0.122 RNASampler(seed): 0.063 Sensitivity RDfolder: 0.025 RNASampler(seed): 0.005 Positive Predictive Value RDfolder: 0.592 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(seed) vs RNASampler(seed) Matthews Correlation Coefficient Murlet(seed): 0.079 RNASampler(seed): 0.063 Sensitivity Murlet(seed): 0.008 RNASampler(seed): 0.005 Positive Predictive Value Murlet(seed): 0.811 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(seed) vs RNASampler(seed) Matthews Correlation Coefficient CMfinder(seed): 0.080 RNASampler(seed): 0.063 Sensitivity CMfinder(seed): 0.008 RNASampler(seed): 0.005 Positive Predictive Value CMfinder(seed): 0.757 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(seed) vs RNASampler(seed) Matthews Correlation Coefficient TurboFold(seed): 0.076 RNASampler(seed): 0.063 Sensitivity TurboFold(seed): 0.007 RNASampler(seed): 0.005 Positive Predictive Value TurboFold(seed): 0.822 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(seed) vs RNASampler(seed) Matthews Correlation Coefficient PPfold(seed): 0.069 RNASampler(seed): 0.063 Sensitivity PPfold(seed): 0.006 RNASampler(seed): 0.005 Positive Predictive Value PPfold(seed): 0.794 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(seed) vs RNASampler(seed) Matthews Correlation Coefficient Carnac(seed): 0.066 RNASampler(seed): 0.063 Sensitivity Carnac(seed): 0.005 RNASampler(seed): 0.005 Positive Predictive Value Carnac(seed): 0.867 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.000857786362802		+ RNASampler(seed) vs NanoFolder Matthews Correlation Coefficient RNASampler(seed): 0.063 NanoFolder: 0.052 Sensitivity RNASampler(seed): 0.005 NanoFolder: 0.016 Positive Predictive Value RNASampler(seed): 0.847 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(seed) vs Mastr(seed) Matthews Correlation Coefficient RNASampler(seed): 0.063 Mastr(seed): 0.051 Sensitivity RNASampler(seed): 0.005 Mastr(seed): 0.003 Positive Predictive Value RNASampler(seed): 0.847 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(seed) vs Multilign(seed) Matthews Correlation Coefficient RNASampler(seed): 0.063 Multilign(seed): 0.043 Sensitivity RNASampler(seed): 0.005 Multilign(seed): 0.003 Positive Predictive Value RNASampler(seed): 0.847 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
NanoFolder	1987 ContextFold vs NanoFolder Matthews Correlation Coefficient ContextFold: 0.680 NanoFolder: 0.052 Sensitivity ContextFold: 0.644 NanoFolder: 0.016 Positive Predictive Value ContextFold: 0.718 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs NanoFolder Matthews Correlation Coefficient IPknot: 0.548 NanoFolder: 0.052 Sensitivity IPknot: 0.475 NanoFolder: 0.016 Positive Predictive Value IPknot: 0.632 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs NanoFolder Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 NanoFolder: 0.052 Sensitivity PETfold_pre2.0(seed): 0.343 NanoFolder: 0.016 Positive Predictive Value PETfold_pre2.0(seed): 0.814 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs NanoFolder Matthews Correlation Coefficient Contrafold: 0.508 NanoFolder: 0.052 Sensitivity Contrafold: 0.481 NanoFolder: 0.016 Positive Predictive Value Contrafold: 0.537 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs NanoFolder Matthews Correlation Coefficient CentroidFold: 0.470 NanoFolder: 0.052 Sensitivity CentroidFold: 0.369 NanoFolder: 0.016 Positive Predictive Value CentroidFold: 0.600 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs NanoFolder Matthews Correlation Coefficient Sfold: 0.469 NanoFolder: 0.052 Sensitivity Sfold: 0.412 NanoFolder: 0.016 Positive Predictive Value Sfold: 0.535 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs NanoFolder Matthews Correlation Coefficient MaxExpect: 0.465 NanoFolder: 0.052 Sensitivity MaxExpect: 0.443 NanoFolder: 0.016 Positive Predictive Value MaxExpect: 0.488 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs NanoFolder Matthews Correlation Coefficient ProbKnot: 0.460 NanoFolder: 0.052 Sensitivity ProbKnot: 0.446 NanoFolder: 0.016 Positive Predictive Value ProbKnot: 0.475 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs NanoFolder Matthews Correlation Coefficient UNAFold: 0.445 NanoFolder: 0.052 Sensitivity UNAFold: 0.445 NanoFolder: 0.016 Positive Predictive Value UNAFold: 0.446 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs NanoFolder Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 NanoFolder: 0.052 Sensitivity CentroidAlifold(seed): 0.213 NanoFolder: 0.016 Positive Predictive Value CentroidAlifold(seed): 0.901 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs NanoFolder Matthews Correlation Coefficient Fold: 0.437 NanoFolder: 0.052 Sensitivity Fold: 0.432 NanoFolder: 0.016 Positive Predictive Value Fold: 0.444 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs NanoFolder Matthews Correlation Coefficient RNAfold: 0.429 NanoFolder: 0.052 Sensitivity RNAfold: 0.422 NanoFolder: 0.016 Positive Predictive Value RNAfold: 0.437 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs NanoFolder Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 NanoFolder: 0.052 Sensitivity CentroidHomfold‑LAST: 0.216 NanoFolder: 0.016 Positive Predictive Value CentroidHomfold‑LAST: 0.850 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs NanoFolder Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 NanoFolder: 0.052 Sensitivity PETfold_pre2.0(20): 0.211 NanoFolder: 0.016 Positive Predictive Value PETfold_pre2.0(20): 0.807 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs NanoFolder Matthews Correlation Coefficient CentroidAlifold(20): 0.411 NanoFolder: 0.052 Sensitivity CentroidAlifold(20): 0.190 NanoFolder: 0.016 Positive Predictive Value CentroidAlifold(20): 0.891 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs NanoFolder Matthews Correlation Coefficient PknotsRG: 0.386 NanoFolder: 0.052 Sensitivity PknotsRG: 0.320 NanoFolder: 0.016 Positive Predictive Value PknotsRG: 0.465 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs NanoFolder Matthews Correlation Coefficient MXScarna(seed): 0.385 NanoFolder: 0.052 Sensitivity MXScarna(seed): 0.196 NanoFolder: 0.016 Positive Predictive Value MXScarna(seed): 0.753 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs NanoFolder Matthews Correlation Coefficient RNAalifold(20): 0.381 NanoFolder: 0.052 Sensitivity RNAalifold(20): 0.185 NanoFolder: 0.016 Positive Predictive Value RNAalifold(20): 0.787 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs NanoFolder Matthews Correlation Coefficient RNAalifold(seed): 0.375 NanoFolder: 0.052 Sensitivity RNAalifold(seed): 0.169 NanoFolder: 0.016 Positive Predictive Value RNAalifold(seed): 0.835 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs NanoFolder Matthews Correlation Coefficient Afold: 0.358 NanoFolder: 0.052 Sensitivity Afold: 0.295 NanoFolder: 0.016 Positive Predictive Value Afold: 0.434 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs NanoFolder Matthews Correlation Coefficient MXScarna(20): 0.359 NanoFolder: 0.052 Sensitivity MXScarna(20): 0.181 NanoFolder: 0.016 Positive Predictive Value MXScarna(20): 0.710 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs NanoFolder Matthews Correlation Coefficient CRWrnafold: 0.346 NanoFolder: 0.052 Sensitivity CRWrnafold: 0.275 NanoFolder: 0.016 Positive Predictive Value CRWrnafold: 0.435 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs NanoFolder Matthews Correlation Coefficient RNAsubopt: 0.336 NanoFolder: 0.052 Sensitivity RNAsubopt: 0.217 NanoFolder: 0.016 Positive Predictive Value RNAsubopt: 0.521 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs NanoFolder Matthews Correlation Coefficient McQFold: 0.314 NanoFolder: 0.052 Sensitivity McQFold: 0.205 NanoFolder: 0.016 Positive Predictive Value McQFold: 0.480 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs NanoFolder Matthews Correlation Coefficient TurboFold(20): 0.301 NanoFolder: 0.052 Sensitivity TurboFold(20): 0.108 NanoFolder: 0.016 Positive Predictive Value TurboFold(20): 0.837 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs NanoFolder Matthews Correlation Coefficient PPfold(20): 0.298 NanoFolder: 0.052 Sensitivity PPfold(20): 0.101 NanoFolder: 0.016 Positive Predictive Value PPfold(20): 0.879 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs NanoFolder Matthews Correlation Coefficient RNAshapes: 0.295 NanoFolder: 0.052 Sensitivity RNAshapes: 0.180 NanoFolder: 0.016 Positive Predictive Value RNAshapes: 0.484 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs NanoFolder Matthews Correlation Coefficient Carnac(20): 0.288 NanoFolder: 0.052 Sensitivity Carnac(20): 0.093 NanoFolder: 0.016 Positive Predictive Value Carnac(20): 0.892 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs NanoFolder Matthews Correlation Coefficient RNASLOpt: 0.281 NanoFolder: 0.052 Sensitivity RNASLOpt: 0.158 NanoFolder: 0.016 Positive Predictive Value RNASLOpt: 0.502 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs NanoFolder Matthews Correlation Coefficient RSpredict(20): 0.270 NanoFolder: 0.052 Sensitivity RSpredict(20): 0.124 NanoFolder: 0.016 Positive Predictive Value RSpredict(20): 0.590 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs NanoFolder Matthews Correlation Coefficient Multilign(20): 0.251 NanoFolder: 0.052 Sensitivity Multilign(20): 0.083 NanoFolder: 0.016 Positive Predictive Value Multilign(20): 0.762 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs NanoFolder Matthews Correlation Coefficient RNAwolf: 0.251 NanoFolder: 0.052 Sensitivity RNAwolf: 0.191 NanoFolder: 0.016 Positive Predictive Value RNAwolf: 0.330 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs NanoFolder Matthews Correlation Coefficient Murlet(20): 0.230 NanoFolder: 0.052 Sensitivity Murlet(20): 0.067 NanoFolder: 0.016 Positive Predictive Value Murlet(20): 0.787 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs NanoFolder Matthews Correlation Coefficient Vsfold4: 0.217 NanoFolder: 0.052 Sensitivity Vsfold4: 0.125 NanoFolder: 0.016 Positive Predictive Value Vsfold4: 0.378 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold5 vs NanoFolder Matthews Correlation Coefficient Vsfold5: 0.211 NanoFolder: 0.052 Sensitivity Vsfold5: 0.125 NanoFolder: 0.016 Positive Predictive Value Vsfold5: 0.359 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(seed) vs NanoFolder Matthews Correlation Coefficient RSpredict(seed): 0.212 NanoFolder: 0.052 Sensitivity RSpredict(seed): 0.075 NanoFolder: 0.016 Positive Predictive Value RSpredict(seed): 0.597 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(20) vs NanoFolder Matthews Correlation Coefficient CMfinder(20): 0.210 NanoFolder: 0.052 Sensitivity CMfinder(20): 0.055 NanoFolder: 0.016 Positive Predictive Value CMfinder(20): 0.794 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 HotKnots vs NanoFolder Matthews Correlation Coefficient HotKnots: 0.179 NanoFolder: 0.052 Sensitivity HotKnots: 0.051 NanoFolder: 0.016 Positive Predictive Value HotKnots: 0.624 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASampler(20) vs NanoFolder Matthews Correlation Coefficient RNASampler(20): 0.176 NanoFolder: 0.052 Sensitivity RNASampler(20): 0.035 NanoFolder: 0.016 Positive Predictive Value RNASampler(20): 0.877 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Cylofold vs NanoFolder Matthews Correlation Coefficient Cylofold: 0.155 NanoFolder: 0.052 Sensitivity Cylofold: 0.040 NanoFolder: 0.016 Positive Predictive Value Cylofold: 0.606 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Pknots vs NanoFolder Matthews Correlation Coefficient Pknots: 0.143 NanoFolder: 0.052 Sensitivity Pknots: 0.033 NanoFolder: 0.016 Positive Predictive Value Pknots: 0.624 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Mastr(20) vs NanoFolder Matthews Correlation Coefficient Mastr(20): 0.134 NanoFolder: 0.052 Sensitivity Mastr(20): 0.023 NanoFolder: 0.016 Positive Predictive Value Mastr(20): 0.790 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Alterna vs NanoFolder Matthews Correlation Coefficient Alterna: 0.129 NanoFolder: 0.052 Sensitivity Alterna: 0.030 NanoFolder: 0.016 Positive Predictive Value Alterna: 0.566 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MCFold vs NanoFolder Matthews Correlation Coefficient MCFold: 0.125 NanoFolder: 0.052 Sensitivity MCFold: 0.036 NanoFolder: 0.016 Positive Predictive Value MCFold: 0.435 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RDfolder vs NanoFolder Matthews Correlation Coefficient RDfolder: 0.122 NanoFolder: 0.052 Sensitivity RDfolder: 0.025 NanoFolder: 0.016 Positive Predictive Value RDfolder: 0.592 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(seed) vs NanoFolder Matthews Correlation Coefficient Murlet(seed): 0.079 NanoFolder: 0.052 Sensitivity Murlet(seed): 0.008 NanoFolder: 0.016 Positive Predictive Value Murlet(seed): 0.811 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(seed) vs NanoFolder Matthews Correlation Coefficient CMfinder(seed): 0.080 NanoFolder: 0.052 Sensitivity CMfinder(seed): 0.008 NanoFolder: 0.016 Positive Predictive Value CMfinder(seed): 0.757 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(seed) vs NanoFolder Matthews Correlation Coefficient TurboFold(seed): 0.076 NanoFolder: 0.052 Sensitivity TurboFold(seed): 0.007 NanoFolder: 0.016 Positive Predictive Value TurboFold(seed): 0.822 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(seed) vs NanoFolder Matthews Correlation Coefficient PPfold(seed): 0.069 NanoFolder: 0.052 Sensitivity PPfold(seed): 0.006 NanoFolder: 0.016 Positive Predictive Value PPfold(seed): 0.794 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(seed) vs NanoFolder Matthews Correlation Coefficient Carnac(seed): 0.066 NanoFolder: 0.052 Sensitivity Carnac(seed): 0.005 NanoFolder: 0.016 Positive Predictive Value Carnac(seed): 0.867 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASampler(seed) vs NanoFolder Matthews Correlation Coefficient RNASampler(seed): 0.063 NanoFolder: 0.052 Sensitivity RNASampler(seed): 0.005 NanoFolder: 0.016 Positive Predictive Value RNASampler(seed): 0.847 NanoFolder: 0.168 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08		= NanoFolder vs Mastr(seed) Matthews Correlation Coefficient NanoFolder: 0.052 Mastr(seed): 0.051 Sensitivity NanoFolder: 0.016 Mastr(seed): 0.003 Positive Predictive Value NanoFolder: 0.168 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.0529232299595	+ NanoFolder vs Multilign(seed) Matthews Correlation Coefficient NanoFolder: 0.052 Multilign(seed): 0.043 Sensitivity NanoFolder: 0.016 Multilign(seed): 0.003 Positive Predictive Value NanoFolder: 0.168 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
Mastr(seed)	1987 ContextFold vs Mastr(seed) Matthews Correlation Coefficient ContextFold: 0.680 Mastr(seed): 0.051 Sensitivity ContextFold: 0.644 Mastr(seed): 0.003 Positive Predictive Value ContextFold: 0.718 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs Mastr(seed) Matthews Correlation Coefficient IPknot: 0.548 Mastr(seed): 0.051 Sensitivity IPknot: 0.475 Mastr(seed): 0.003 Positive Predictive Value IPknot: 0.632 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs Mastr(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Mastr(seed): 0.051 Sensitivity PETfold_pre2.0(seed): 0.343 Mastr(seed): 0.003 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs Mastr(seed) Matthews Correlation Coefficient Contrafold: 0.508 Mastr(seed): 0.051 Sensitivity Contrafold: 0.481 Mastr(seed): 0.003 Positive Predictive Value Contrafold: 0.537 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs Mastr(seed) Matthews Correlation Coefficient CentroidFold: 0.470 Mastr(seed): 0.051 Sensitivity CentroidFold: 0.369 Mastr(seed): 0.003 Positive Predictive Value CentroidFold: 0.600 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs Mastr(seed) Matthews Correlation Coefficient Sfold: 0.469 Mastr(seed): 0.051 Sensitivity Sfold: 0.412 Mastr(seed): 0.003 Positive Predictive Value Sfold: 0.535 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs Mastr(seed) Matthews Correlation Coefficient MaxExpect: 0.465 Mastr(seed): 0.051 Sensitivity MaxExpect: 0.443 Mastr(seed): 0.003 Positive Predictive Value MaxExpect: 0.488 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs Mastr(seed) Matthews Correlation Coefficient ProbKnot: 0.460 Mastr(seed): 0.051 Sensitivity ProbKnot: 0.446 Mastr(seed): 0.003 Positive Predictive Value ProbKnot: 0.475 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs Mastr(seed) Matthews Correlation Coefficient UNAFold: 0.445 Mastr(seed): 0.051 Sensitivity UNAFold: 0.445 Mastr(seed): 0.003 Positive Predictive Value UNAFold: 0.446 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs Mastr(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Mastr(seed): 0.051 Sensitivity CentroidAlifold(seed): 0.213 Mastr(seed): 0.003 Positive Predictive Value CentroidAlifold(seed): 0.901 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs Mastr(seed) Matthews Correlation Coefficient Fold: 0.437 Mastr(seed): 0.051 Sensitivity Fold: 0.432 Mastr(seed): 0.003 Positive Predictive Value Fold: 0.444 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs Mastr(seed) Matthews Correlation Coefficient RNAfold: 0.429 Mastr(seed): 0.051 Sensitivity RNAfold: 0.422 Mastr(seed): 0.003 Positive Predictive Value RNAfold: 0.437 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs Mastr(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Mastr(seed): 0.051 Sensitivity CentroidHomfold‑LAST: 0.216 Mastr(seed): 0.003 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs Mastr(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Mastr(seed): 0.051 Sensitivity PETfold_pre2.0(20): 0.211 Mastr(seed): 0.003 Positive Predictive Value PETfold_pre2.0(20): 0.807 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs Mastr(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Mastr(seed): 0.051 Sensitivity CentroidAlifold(20): 0.190 Mastr(seed): 0.003 Positive Predictive Value CentroidAlifold(20): 0.891 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs Mastr(seed) Matthews Correlation Coefficient PknotsRG: 0.386 Mastr(seed): 0.051 Sensitivity PknotsRG: 0.320 Mastr(seed): 0.003 Positive Predictive Value PknotsRG: 0.465 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs Mastr(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 Mastr(seed): 0.051 Sensitivity MXScarna(seed): 0.196 Mastr(seed): 0.003 Positive Predictive Value MXScarna(seed): 0.753 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs Mastr(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 Mastr(seed): 0.051 Sensitivity RNAalifold(20): 0.185 Mastr(seed): 0.003 Positive Predictive Value RNAalifold(20): 0.787 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs Mastr(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.375 Mastr(seed): 0.051 Sensitivity RNAalifold(seed): 0.169 Mastr(seed): 0.003 Positive Predictive Value RNAalifold(seed): 0.835 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs Mastr(seed) Matthews Correlation Coefficient Afold: 0.358 Mastr(seed): 0.051 Sensitivity Afold: 0.295 Mastr(seed): 0.003 Positive Predictive Value Afold: 0.434 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs Mastr(seed) Matthews Correlation Coefficient MXScarna(20): 0.359 Mastr(seed): 0.051 Sensitivity MXScarna(20): 0.181 Mastr(seed): 0.003 Positive Predictive Value MXScarna(20): 0.710 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs Mastr(seed) Matthews Correlation Coefficient CRWrnafold: 0.346 Mastr(seed): 0.051 Sensitivity CRWrnafold: 0.275 Mastr(seed): 0.003 Positive Predictive Value CRWrnafold: 0.435 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs Mastr(seed) Matthews Correlation Coefficient RNAsubopt: 0.336 Mastr(seed): 0.051 Sensitivity RNAsubopt: 0.217 Mastr(seed): 0.003 Positive Predictive Value RNAsubopt: 0.521 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs Mastr(seed) Matthews Correlation Coefficient McQFold: 0.314 Mastr(seed): 0.051 Sensitivity McQFold: 0.205 Mastr(seed): 0.003 Positive Predictive Value McQFold: 0.480 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs Mastr(seed) Matthews Correlation Coefficient TurboFold(20): 0.301 Mastr(seed): 0.051 Sensitivity TurboFold(20): 0.108 Mastr(seed): 0.003 Positive Predictive Value TurboFold(20): 0.837 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs Mastr(seed) Matthews Correlation Coefficient PPfold(20): 0.298 Mastr(seed): 0.051 Sensitivity PPfold(20): 0.101 Mastr(seed): 0.003 Positive Predictive Value PPfold(20): 0.879 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs Mastr(seed) Matthews Correlation Coefficient RNAshapes: 0.295 Mastr(seed): 0.051 Sensitivity RNAshapes: 0.180 Mastr(seed): 0.003 Positive Predictive Value RNAshapes: 0.484 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs Mastr(seed) Matthews Correlation Coefficient Carnac(20): 0.288 Mastr(seed): 0.051 Sensitivity Carnac(20): 0.093 Mastr(seed): 0.003 Positive Predictive Value Carnac(20): 0.892 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs Mastr(seed) Matthews Correlation Coefficient RNASLOpt: 0.281 Mastr(seed): 0.051 Sensitivity RNASLOpt: 0.158 Mastr(seed): 0.003 Positive Predictive Value RNASLOpt: 0.502 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs Mastr(seed) Matthews Correlation Coefficient RSpredict(20): 0.270 Mastr(seed): 0.051 Sensitivity RSpredict(20): 0.124 Mastr(seed): 0.003 Positive Predictive Value RSpredict(20): 0.590 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs Mastr(seed) Matthews Correlation Coefficient Multilign(20): 0.251 Mastr(seed): 0.051 Sensitivity Multilign(20): 0.083 Mastr(seed): 0.003 Positive Predictive Value Multilign(20): 0.762 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs Mastr(seed) Matthews Correlation Coefficient RNAwolf: 0.251 Mastr(seed): 0.051 Sensitivity RNAwolf: 0.191 Mastr(seed): 0.003 Positive Predictive Value RNAwolf: 0.330 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs Mastr(seed) Matthews Correlation Coefficient Murlet(20): 0.230 Mastr(seed): 0.051 Sensitivity Murlet(20): 0.067 Mastr(seed): 0.003 Positive Predictive Value Murlet(20): 0.787 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs Mastr(seed) Matthews Correlation Coefficient Vsfold4: 0.217 Mastr(seed): 0.051 Sensitivity Vsfold4: 0.125 Mastr(seed): 0.003 Positive Predictive Value Vsfold4: 0.378 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold5 vs Mastr(seed) Matthews Correlation Coefficient Vsfold5: 0.211 Mastr(seed): 0.051 Sensitivity Vsfold5: 0.125 Mastr(seed): 0.003 Positive Predictive Value Vsfold5: 0.359 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(seed) vs Mastr(seed) Matthews Correlation Coefficient RSpredict(seed): 0.212 Mastr(seed): 0.051 Sensitivity RSpredict(seed): 0.075 Mastr(seed): 0.003 Positive Predictive Value RSpredict(seed): 0.597 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(20) vs Mastr(seed) Matthews Correlation Coefficient CMfinder(20): 0.210 Mastr(seed): 0.051 Sensitivity CMfinder(20): 0.055 Mastr(seed): 0.003 Positive Predictive Value CMfinder(20): 0.794 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 HotKnots vs Mastr(seed) Matthews Correlation Coefficient HotKnots: 0.179 Mastr(seed): 0.051 Sensitivity HotKnots: 0.051 Mastr(seed): 0.003 Positive Predictive Value HotKnots: 0.624 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASampler(20) vs Mastr(seed) Matthews Correlation Coefficient RNASampler(20): 0.176 Mastr(seed): 0.051 Sensitivity RNASampler(20): 0.035 Mastr(seed): 0.003 Positive Predictive Value RNASampler(20): 0.877 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Cylofold vs Mastr(seed) Matthews Correlation Coefficient Cylofold: 0.155 Mastr(seed): 0.051 Sensitivity Cylofold: 0.040 Mastr(seed): 0.003 Positive Predictive Value Cylofold: 0.606 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Pknots vs Mastr(seed) Matthews Correlation Coefficient Pknots: 0.143 Mastr(seed): 0.051 Sensitivity Pknots: 0.033 Mastr(seed): 0.003 Positive Predictive Value Pknots: 0.624 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Mastr(20) vs Mastr(seed) Matthews Correlation Coefficient Mastr(20): 0.134 Mastr(seed): 0.051 Sensitivity Mastr(20): 0.023 Mastr(seed): 0.003 Positive Predictive Value Mastr(20): 0.790 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Alterna vs Mastr(seed) Matthews Correlation Coefficient Alterna: 0.129 Mastr(seed): 0.051 Sensitivity Alterna: 0.030 Mastr(seed): 0.003 Positive Predictive Value Alterna: 0.566 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MCFold vs Mastr(seed) Matthews Correlation Coefficient MCFold: 0.125 Mastr(seed): 0.051 Sensitivity MCFold: 0.036 Mastr(seed): 0.003 Positive Predictive Value MCFold: 0.435 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RDfolder vs Mastr(seed) Matthews Correlation Coefficient RDfolder: 0.122 Mastr(seed): 0.051 Sensitivity RDfolder: 0.025 Mastr(seed): 0.003 Positive Predictive Value RDfolder: 0.592 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(seed) vs Mastr(seed) Matthews Correlation Coefficient Murlet(seed): 0.079 Mastr(seed): 0.051 Sensitivity Murlet(seed): 0.008 Mastr(seed): 0.003 Positive Predictive Value Murlet(seed): 0.811 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(seed) vs Mastr(seed) Matthews Correlation Coefficient CMfinder(seed): 0.080 Mastr(seed): 0.051 Sensitivity CMfinder(seed): 0.008 Mastr(seed): 0.003 Positive Predictive Value CMfinder(seed): 0.757 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(seed) vs Mastr(seed) Matthews Correlation Coefficient TurboFold(seed): 0.076 Mastr(seed): 0.051 Sensitivity TurboFold(seed): 0.007 Mastr(seed): 0.003 Positive Predictive Value TurboFold(seed): 0.822 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(seed) vs Mastr(seed) Matthews Correlation Coefficient PPfold(seed): 0.069 Mastr(seed): 0.051 Sensitivity PPfold(seed): 0.006 Mastr(seed): 0.003 Positive Predictive Value PPfold(seed): 0.794 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(seed) vs Mastr(seed) Matthews Correlation Coefficient Carnac(seed): 0.066 Mastr(seed): 0.051 Sensitivity Carnac(seed): 0.005 Mastr(seed): 0.003 Positive Predictive Value Carnac(seed): 0.867 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASampler(seed) vs Mastr(seed) Matthews Correlation Coefficient RNASampler(seed): 0.063 Mastr(seed): 0.051 Sensitivity RNASampler(seed): 0.005 Mastr(seed): 0.003 Positive Predictive Value RNASampler(seed): 0.847 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 NanoFolder vs Mastr(seed) Matthews Correlation Coefficient NanoFolder: 0.052 Mastr(seed): 0.051 Sensitivity NanoFolder: 0.016 Mastr(seed): 0.003 Positive Predictive Value NanoFolder: 0.168 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 0.0529232299595		+ Mastr(seed) vs Multilign(seed) Matthews Correlation Coefficient Mastr(seed): 0.051 Multilign(seed): 0.043 Sensitivity Mastr(seed): 0.003 Multilign(seed): 0.003 Positive Predictive Value Mastr(seed): 0.820 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08
Multilign(seed)	1987 ContextFold vs Multilign(seed) Matthews Correlation Coefficient ContextFold: 0.680 Multilign(seed): 0.043 Sensitivity ContextFold: 0.644 Multilign(seed): 0.003 Positive Predictive Value ContextFold: 0.718 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 IPknot vs Multilign(seed) Matthews Correlation Coefficient IPknot: 0.548 Multilign(seed): 0.043 Sensitivity IPknot: 0.475 Multilign(seed): 0.003 Positive Predictive Value IPknot: 0.632 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(seed) vs Multilign(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.529 Multilign(seed): 0.043 Sensitivity PETfold_pre2.0(seed): 0.343 Multilign(seed): 0.003 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Contrafold vs Multilign(seed) Matthews Correlation Coefficient Contrafold: 0.508 Multilign(seed): 0.043 Sensitivity Contrafold: 0.481 Multilign(seed): 0.003 Positive Predictive Value Contrafold: 0.537 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidFold vs Multilign(seed) Matthews Correlation Coefficient CentroidFold: 0.470 Multilign(seed): 0.043 Sensitivity CentroidFold: 0.369 Multilign(seed): 0.003 Positive Predictive Value CentroidFold: 0.600 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Sfold vs Multilign(seed) Matthews Correlation Coefficient Sfold: 0.469 Multilign(seed): 0.043 Sensitivity Sfold: 0.412 Multilign(seed): 0.003 Positive Predictive Value Sfold: 0.535 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MaxExpect vs Multilign(seed) Matthews Correlation Coefficient MaxExpect: 0.465 Multilign(seed): 0.043 Sensitivity MaxExpect: 0.443 Multilign(seed): 0.003 Positive Predictive Value MaxExpect: 0.488 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 ProbKnot vs Multilign(seed) Matthews Correlation Coefficient ProbKnot: 0.460 Multilign(seed): 0.043 Sensitivity ProbKnot: 0.446 Multilign(seed): 0.003 Positive Predictive Value ProbKnot: 0.475 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 UNAFold vs Multilign(seed) Matthews Correlation Coefficient UNAFold: 0.445 Multilign(seed): 0.043 Sensitivity UNAFold: 0.445 Multilign(seed): 0.003 Positive Predictive Value UNAFold: 0.446 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(seed) vs Multilign(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.438 Multilign(seed): 0.043 Sensitivity CentroidAlifold(seed): 0.213 Multilign(seed): 0.003 Positive Predictive Value CentroidAlifold(seed): 0.901 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Fold vs Multilign(seed) Matthews Correlation Coefficient Fold: 0.437 Multilign(seed): 0.043 Sensitivity Fold: 0.432 Multilign(seed): 0.003 Positive Predictive Value Fold: 0.444 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAfold vs Multilign(seed) Matthews Correlation Coefficient RNAfold: 0.429 Multilign(seed): 0.043 Sensitivity RNAfold: 0.422 Multilign(seed): 0.003 Positive Predictive Value RNAfold: 0.437 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidHomfold‑LAST vs Multilign(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.428 Multilign(seed): 0.043 Sensitivity CentroidHomfold‑LAST: 0.216 Multilign(seed): 0.003 Positive Predictive Value CentroidHomfold‑LAST: 0.850 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PETfold_pre2.0(20) vs Multilign(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.413 Multilign(seed): 0.043 Sensitivity PETfold_pre2.0(20): 0.211 Multilign(seed): 0.003 Positive Predictive Value PETfold_pre2.0(20): 0.807 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CentroidAlifold(20) vs Multilign(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.411 Multilign(seed): 0.043 Sensitivity CentroidAlifold(20): 0.190 Multilign(seed): 0.003 Positive Predictive Value CentroidAlifold(20): 0.891 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PknotsRG vs Multilign(seed) Matthews Correlation Coefficient PknotsRG: 0.386 Multilign(seed): 0.043 Sensitivity PknotsRG: 0.320 Multilign(seed): 0.003 Positive Predictive Value PknotsRG: 0.465 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(seed) vs Multilign(seed) Matthews Correlation Coefficient MXScarna(seed): 0.385 Multilign(seed): 0.043 Sensitivity MXScarna(seed): 0.196 Multilign(seed): 0.003 Positive Predictive Value MXScarna(seed): 0.753 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(20) vs Multilign(seed) Matthews Correlation Coefficient RNAalifold(20): 0.381 Multilign(seed): 0.043 Sensitivity RNAalifold(20): 0.185 Multilign(seed): 0.003 Positive Predictive Value RNAalifold(20): 0.787 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAalifold(seed) vs Multilign(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.375 Multilign(seed): 0.043 Sensitivity RNAalifold(seed): 0.169 Multilign(seed): 0.003 Positive Predictive Value RNAalifold(seed): 0.835 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Afold vs Multilign(seed) Matthews Correlation Coefficient Afold: 0.358 Multilign(seed): 0.043 Sensitivity Afold: 0.295 Multilign(seed): 0.003 Positive Predictive Value Afold: 0.434 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MXScarna(20) vs Multilign(seed) Matthews Correlation Coefficient MXScarna(20): 0.359 Multilign(seed): 0.043 Sensitivity MXScarna(20): 0.181 Multilign(seed): 0.003 Positive Predictive Value MXScarna(20): 0.710 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CRWrnafold vs Multilign(seed) Matthews Correlation Coefficient CRWrnafold: 0.346 Multilign(seed): 0.043 Sensitivity CRWrnafold: 0.275 Multilign(seed): 0.003 Positive Predictive Value CRWrnafold: 0.435 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAsubopt vs Multilign(seed) Matthews Correlation Coefficient RNAsubopt: 0.336 Multilign(seed): 0.043 Sensitivity RNAsubopt: 0.217 Multilign(seed): 0.003 Positive Predictive Value RNAsubopt: 0.521 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 McQFold vs Multilign(seed) Matthews Correlation Coefficient McQFold: 0.314 Multilign(seed): 0.043 Sensitivity McQFold: 0.205 Multilign(seed): 0.003 Positive Predictive Value McQFold: 0.480 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(20) vs Multilign(seed) Matthews Correlation Coefficient TurboFold(20): 0.301 Multilign(seed): 0.043 Sensitivity TurboFold(20): 0.108 Multilign(seed): 0.003 Positive Predictive Value TurboFold(20): 0.837 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(20) vs Multilign(seed) Matthews Correlation Coefficient PPfold(20): 0.298 Multilign(seed): 0.043 Sensitivity PPfold(20): 0.101 Multilign(seed): 0.003 Positive Predictive Value PPfold(20): 0.879 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAshapes vs Multilign(seed) Matthews Correlation Coefficient RNAshapes: 0.295 Multilign(seed): 0.043 Sensitivity RNAshapes: 0.180 Multilign(seed): 0.003 Positive Predictive Value RNAshapes: 0.484 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(20) vs Multilign(seed) Matthews Correlation Coefficient Carnac(20): 0.288 Multilign(seed): 0.043 Sensitivity Carnac(20): 0.093 Multilign(seed): 0.003 Positive Predictive Value Carnac(20): 0.892 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASLOpt vs Multilign(seed) Matthews Correlation Coefficient RNASLOpt: 0.281 Multilign(seed): 0.043 Sensitivity RNASLOpt: 0.158 Multilign(seed): 0.003 Positive Predictive Value RNASLOpt: 0.502 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(20) vs Multilign(seed) Matthews Correlation Coefficient RSpredict(20): 0.270 Multilign(seed): 0.043 Sensitivity RSpredict(20): 0.124 Multilign(seed): 0.003 Positive Predictive Value RSpredict(20): 0.590 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Multilign(20) vs Multilign(seed) Matthews Correlation Coefficient Multilign(20): 0.251 Multilign(seed): 0.043 Sensitivity Multilign(20): 0.083 Multilign(seed): 0.003 Positive Predictive Value Multilign(20): 0.762 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNAwolf vs Multilign(seed) Matthews Correlation Coefficient RNAwolf: 0.251 Multilign(seed): 0.043 Sensitivity RNAwolf: 0.191 Multilign(seed): 0.003 Positive Predictive Value RNAwolf: 0.330 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(20) vs Multilign(seed) Matthews Correlation Coefficient Murlet(20): 0.230 Multilign(seed): 0.043 Sensitivity Murlet(20): 0.067 Multilign(seed): 0.003 Positive Predictive Value Murlet(20): 0.787 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold4 vs Multilign(seed) Matthews Correlation Coefficient Vsfold4: 0.217 Multilign(seed): 0.043 Sensitivity Vsfold4: 0.125 Multilign(seed): 0.003 Positive Predictive Value Vsfold4: 0.378 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Vsfold5 vs Multilign(seed) Matthews Correlation Coefficient Vsfold5: 0.211 Multilign(seed): 0.043 Sensitivity Vsfold5: 0.125 Multilign(seed): 0.003 Positive Predictive Value Vsfold5: 0.359 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RSpredict(seed) vs Multilign(seed) Matthews Correlation Coefficient RSpredict(seed): 0.212 Multilign(seed): 0.043 Sensitivity RSpredict(seed): 0.075 Multilign(seed): 0.003 Positive Predictive Value RSpredict(seed): 0.597 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(20) vs Multilign(seed) Matthews Correlation Coefficient CMfinder(20): 0.210 Multilign(seed): 0.043 Sensitivity CMfinder(20): 0.055 Multilign(seed): 0.003 Positive Predictive Value CMfinder(20): 0.794 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 HotKnots vs Multilign(seed) Matthews Correlation Coefficient HotKnots: 0.179 Multilign(seed): 0.043 Sensitivity HotKnots: 0.051 Multilign(seed): 0.003 Positive Predictive Value HotKnots: 0.624 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASampler(20) vs Multilign(seed) Matthews Correlation Coefficient RNASampler(20): 0.176 Multilign(seed): 0.043 Sensitivity RNASampler(20): 0.035 Multilign(seed): 0.003 Positive Predictive Value RNASampler(20): 0.877 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Cylofold vs Multilign(seed) Matthews Correlation Coefficient Cylofold: 0.155 Multilign(seed): 0.043 Sensitivity Cylofold: 0.040 Multilign(seed): 0.003 Positive Predictive Value Cylofold: 0.606 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Pknots vs Multilign(seed) Matthews Correlation Coefficient Pknots: 0.143 Multilign(seed): 0.043 Sensitivity Pknots: 0.033 Multilign(seed): 0.003 Positive Predictive Value Pknots: 0.624 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Mastr(20) vs Multilign(seed) Matthews Correlation Coefficient Mastr(20): 0.134 Multilign(seed): 0.043 Sensitivity Mastr(20): 0.023 Multilign(seed): 0.003 Positive Predictive Value Mastr(20): 0.790 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Alterna vs Multilign(seed) Matthews Correlation Coefficient Alterna: 0.129 Multilign(seed): 0.043 Sensitivity Alterna: 0.030 Multilign(seed): 0.003 Positive Predictive Value Alterna: 0.566 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 MCFold vs Multilign(seed) Matthews Correlation Coefficient MCFold: 0.125 Multilign(seed): 0.043 Sensitivity MCFold: 0.036 Multilign(seed): 0.003 Positive Predictive Value MCFold: 0.435 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RDfolder vs Multilign(seed) Matthews Correlation Coefficient RDfolder: 0.122 Multilign(seed): 0.043 Sensitivity RDfolder: 0.025 Multilign(seed): 0.003 Positive Predictive Value RDfolder: 0.592 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Murlet(seed) vs Multilign(seed) Matthews Correlation Coefficient Murlet(seed): 0.079 Multilign(seed): 0.043 Sensitivity Murlet(seed): 0.008 Multilign(seed): 0.003 Positive Predictive Value Murlet(seed): 0.811 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 CMfinder(seed) vs Multilign(seed) Matthews Correlation Coefficient CMfinder(seed): 0.080 Multilign(seed): 0.043 Sensitivity CMfinder(seed): 0.008 Multilign(seed): 0.003 Positive Predictive Value CMfinder(seed): 0.757 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 TurboFold(seed) vs Multilign(seed) Matthews Correlation Coefficient TurboFold(seed): 0.076 Multilign(seed): 0.043 Sensitivity TurboFold(seed): 0.007 Multilign(seed): 0.003 Positive Predictive Value TurboFold(seed): 0.822 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 PPfold(seed) vs Multilign(seed) Matthews Correlation Coefficient PPfold(seed): 0.069 Multilign(seed): 0.043 Sensitivity PPfold(seed): 0.006 Multilign(seed): 0.003 Positive Predictive Value PPfold(seed): 0.794 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Carnac(seed) vs Multilign(seed) Matthews Correlation Coefficient Carnac(seed): 0.066 Multilign(seed): 0.043 Sensitivity Carnac(seed): 0.005 Multilign(seed): 0.003 Positive Predictive Value Carnac(seed): 0.867 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 RNASampler(seed) vs Multilign(seed) Matthews Correlation Coefficient RNASampler(seed): 0.063 Multilign(seed): 0.043 Sensitivity RNASampler(seed): 0.005 Multilign(seed): 0.003 Positive Predictive Value RNASampler(seed): 0.847 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 NanoFolder vs Multilign(seed) Matthews Correlation Coefficient NanoFolder: 0.052 Multilign(seed): 0.043 Sensitivity NanoFolder: 0.016 Multilign(seed): 0.003 Positive Predictive Value NanoFolder: 0.168 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08	1987 Mastr(seed) vs Multilign(seed) Matthews Correlation Coefficient Mastr(seed): 0.051 Multilign(seed): 0.043 Sensitivity Mastr(seed): 0.003 Multilign(seed): 0.003 Positive Predictive Value Mastr(seed): 0.820 Multilign(seed): 0.717 Number of pairs reference - predicted secondary structure: 1987 Wilcoxon single-rank test P-value: 3.56938820447e-08

Matthews Correlation Coefficients (MCC) plotted for all methods in a ranking. MCCs were calculated by taking into account all reference and predicted RNA structures by a given method in the entire ranking. The plot includes only methods for which at least 40% of comparisons with other methods is valid (i.e. at least 40% of the comparisons were based on more than 10 predictions for common targets). The number on the right to each bar, corresponds to the percent of RNAs for which a given method managed to generate a prediction in 24 hours when run on a single processor (2.4 GHZ).

All RNAs from the RNAstrand datasetrobustness test

Summary of pairwise comparisons

Detailed results of pairwise comparisons between methods

All RNAs from the RNAstrand dataset
robustness test