CompaRNA - on-line benchmarks of RNA structure prediction methods

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All RNAs from the RNAstrand dataset
robustness test for Rfam families

	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.
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: 1242
Robustness test: yes, on RNAs with Rfam family assigned

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	1242	1242	0.754
2	PETfold_pre2.0(seed)	no	52	1	0	0	1242	1224	0.737
3	CentroidAlifold(seed)	yes	51	2	0	0	1242	706	0.611
4	IPknot	yes	50	3	0	0	1242	1242	0.607
5	PETfold_pre2.0(20)	no	49	4	0	0	1242	639	0.575
6	CentroidFold	yes	47	5	1	0	1242	1241	0.571
6	CentroidAlifold(20)	yes	47	5	1	0	1242	642	0.573
8	CentroidHomfold‑LAST	yes	46	7	0	0	1242	1146	0.560
9	Contrafold	yes	45	8	0	0	1242	1242	0.556
10	MXScarna(seed)	no	44	9	0	0	1242	728	0.536
11	RNAalifold(20)	no	43	10	0	0	1242	642	0.532
12	Sfold	no	42	11	0	0	1242	1242	0.527
13	RNAalifold(seed)	no	41	12	0	0	1242	700	0.523
14	MaxExpect	yes	40	13	0	0	1242	1242	0.516
15	ProbKnot	yes	39	14	0	0	1242	1242	0.512
16	MXScarna(20)	no	38	15	0	0	1242	642	0.500
17	Fold	no	36	16	1	0	1242	1242	0.493
17	UNAFold	no	36	16	1	0	1242	1242	0.494
19	RNAfold	no	35	18	0	0	1242	1242	0.485
20	PknotsRG	no	34	19	0	0	1242	1211	0.474
21	CRWrnafold	yes	33	20	0	0	1242	1188	0.430
22	RNAsubopt	no	32	21	0	0	1242	1146	0.422
23	TurboFold(20)	no	31	22	0	0	1242	565	0.419
24	PPfold(20)	yes	30	23	0	0	1242	558	0.416
25	Afold	no	29	24	0	0	1242	716	0.408
26	Carnac(20)	no	28	25	0	0	1242	642	0.401
27	McQFold	yes	27	26	0	0	1242	1159	0.389
28	RSpredict(20)	no	26	27	0	0	1242	642	0.377
29	RNAshapes	no	25	28	0	0	1242	1113	0.367
30	RNASLOpt	no	24	29	0	0	1242	1077	0.364
31	Multilign(20)	no	23	30	0	0	1242	534	0.350
32	Murlet(20)	yes	22	31	0	0	1242	504	0.321
33	RNAwolf	yes	21	32	0	0	1242	1159	0.310
34	RSpredict(seed)	no	20	33	0	0	1242	702	0.295
35	CMfinder(20)	yes	19	34	0	0	1242	561	0.292
36	Vsfold4	no	18	35	0	0	1242	1131	0.270
37	Vsfold5	no	17	36	0	0	1242	1124	0.260
38	RNASampler(20)	no	16	37	0	0	1242	393	0.246
39	HotKnots	no	15	38	0	0	1242	498	0.212
40	Mastr(20)	yes	14	39	0	0	1242	592	0.187
41	Cylofold	no	13	40	0	0	1242	466	0.178
42	Pknots	no	12	41	0	0	1242	361	0.165
43	Alterna	no	11	42	0	0	1242	360	0.145
44	MCFold	yes	9	43	1	0	1242	410	0.138
44	RDfolder	no	9	43	1	0	1242	360	0.138
46	CMfinder(seed)	yes	7	45	1	0	1242	129	0.111
46	Murlet(seed)	yes	7	45	1	0	1242	123	0.110
48	TurboFold(seed)	no	6	47	0	0	1242	51	0.106
49	PPfold(seed)	yes	5	48	0	0	1242	63	0.097
50	Carnac(seed)	no	4	49	0	0	1242	269	0.093
51	RNASampler(seed)	no	3	50	0	0	1242	98	0.088
52	Mastr(seed)	yes	2	51	0	0	1242	644	0.072
53	NanoFolder	yes	1	52	0	0	1242	192	0.068
54	Multilign(seed)	no	0	53	0	0	1242	22	0.059

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 PETfold_pre2.0(seed) Matthews Correlation Coefficient ContextFold: 0.754 PETfold_pre2.0(seed): 0.737 Sensitivity ContextFold: 0.717 PETfold_pre2.0(seed): 0.667 Positive Predictive Value ContextFold: 0.794 PETfold_pre2.0(seed): 0.814 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs CentroidAlifold(seed) Matthews Correlation Coefficient ContextFold: 0.754 CentroidAlifold(seed): 0.611 Sensitivity ContextFold: 0.717 CentroidAlifold(seed): 0.414 Positive Predictive Value ContextFold: 0.794 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs IPknot Matthews Correlation Coefficient ContextFold: 0.754 IPknot: 0.607 Sensitivity ContextFold: 0.717 IPknot: 0.551 Positive Predictive Value ContextFold: 0.794 IPknot: 0.670 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs PETfold_pre2.0(20) Matthews Correlation Coefficient ContextFold: 0.754 PETfold_pre2.0(20): 0.575 Sensitivity ContextFold: 0.717 PETfold_pre2.0(20): 0.410 Positive Predictive Value ContextFold: 0.794 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs CentroidFold Matthews Correlation Coefficient ContextFold: 0.754 CentroidFold: 0.571 Sensitivity ContextFold: 0.717 CentroidFold: 0.515 Positive Predictive Value ContextFold: 0.794 CentroidFold: 0.633 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs CentroidAlifold(20) Matthews Correlation Coefficient ContextFold: 0.754 CentroidAlifold(20): 0.573 Sensitivity ContextFold: 0.717 CentroidAlifold(20): 0.369 Positive Predictive Value ContextFold: 0.794 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs CentroidHomfold‑LAST Matthews Correlation Coefficient ContextFold: 0.754 CentroidHomfold‑LAST: 0.560 Sensitivity ContextFold: 0.717 CentroidHomfold‑LAST: 0.359 Positive Predictive Value ContextFold: 0.794 CentroidHomfold‑LAST: 0.874 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Contrafold Matthews Correlation Coefficient ContextFold: 0.754 Contrafold: 0.556 Sensitivity ContextFold: 0.717 Contrafold: 0.542 Positive Predictive Value ContextFold: 0.794 Contrafold: 0.571 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs MXScarna(seed) Matthews Correlation Coefficient ContextFold: 0.754 MXScarna(seed): 0.536 Sensitivity ContextFold: 0.717 MXScarna(seed): 0.382 Positive Predictive Value ContextFold: 0.794 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RNAalifold(20) Matthews Correlation Coefficient ContextFold: 0.754 RNAalifold(20): 0.532 Sensitivity ContextFold: 0.717 RNAalifold(20): 0.359 Positive Predictive Value ContextFold: 0.794 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Sfold Matthews Correlation Coefficient ContextFold: 0.754 Sfold: 0.527 Sensitivity ContextFold: 0.717 Sfold: 0.477 Positive Predictive Value ContextFold: 0.794 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RNAalifold(seed) Matthews Correlation Coefficient ContextFold: 0.754 RNAalifold(seed): 0.523 Sensitivity ContextFold: 0.717 RNAalifold(seed): 0.328 Positive Predictive Value ContextFold: 0.794 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs MaxExpect Matthews Correlation Coefficient ContextFold: 0.754 MaxExpect: 0.516 Sensitivity ContextFold: 0.717 MaxExpect: 0.505 Positive Predictive Value ContextFold: 0.794 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs ProbKnot Matthews Correlation Coefficient ContextFold: 0.754 ProbKnot: 0.512 Sensitivity ContextFold: 0.717 ProbKnot: 0.508 Positive Predictive Value ContextFold: 0.794 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs MXScarna(20) Matthews Correlation Coefficient ContextFold: 0.754 MXScarna(20): 0.500 Sensitivity ContextFold: 0.717 MXScarna(20): 0.353 Positive Predictive Value ContextFold: 0.794 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs UNAFold Matthews Correlation Coefficient ContextFold: 0.754 UNAFold: 0.494 Sensitivity ContextFold: 0.717 UNAFold: 0.491 Positive Predictive Value ContextFold: 0.794 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Fold Matthews Correlation Coefficient ContextFold: 0.754 Fold: 0.493 Sensitivity ContextFold: 0.717 Fold: 0.496 Positive Predictive Value ContextFold: 0.794 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RNAfold Matthews Correlation Coefficient ContextFold: 0.754 RNAfold: 0.485 Sensitivity ContextFold: 0.717 RNAfold: 0.486 Positive Predictive Value ContextFold: 0.794 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs PknotsRG Matthews Correlation Coefficient ContextFold: 0.754 PknotsRG: 0.474 Sensitivity ContextFold: 0.717 PknotsRG: 0.440 Positive Predictive Value ContextFold: 0.794 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs CRWrnafold Matthews Correlation Coefficient ContextFold: 0.754 CRWrnafold: 0.430 Sensitivity ContextFold: 0.717 CRWrnafold: 0.379 Positive Predictive Value ContextFold: 0.794 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RNAsubopt Matthews Correlation Coefficient ContextFold: 0.754 RNAsubopt: 0.422 Sensitivity ContextFold: 0.717 RNAsubopt: 0.344 Positive Predictive Value ContextFold: 0.794 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs TurboFold(20) Matthews Correlation Coefficient ContextFold: 0.754 TurboFold(20): 0.419 Sensitivity ContextFold: 0.717 TurboFold(20): 0.210 Positive Predictive Value ContextFold: 0.794 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs PPfold(20) Matthews Correlation Coefficient ContextFold: 0.754 PPfold(20): 0.416 Sensitivity ContextFold: 0.717 PPfold(20): 0.197 Positive Predictive Value ContextFold: 0.794 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Afold Matthews Correlation Coefficient ContextFold: 0.754 Afold: 0.408 Sensitivity ContextFold: 0.717 Afold: 0.343 Positive Predictive Value ContextFold: 0.794 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Carnac(20) Matthews Correlation Coefficient ContextFold: 0.754 Carnac(20): 0.401 Sensitivity ContextFold: 0.717 Carnac(20): 0.180 Positive Predictive Value ContextFold: 0.794 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs McQFold Matthews Correlation Coefficient ContextFold: 0.754 McQFold: 0.389 Sensitivity ContextFold: 0.717 McQFold: 0.308 Positive Predictive Value ContextFold: 0.794 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RSpredict(20) Matthews Correlation Coefficient ContextFold: 0.754 RSpredict(20): 0.377 Sensitivity ContextFold: 0.717 RSpredict(20): 0.241 Positive Predictive Value ContextFold: 0.794 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RNAshapes Matthews Correlation Coefficient ContextFold: 0.754 RNAshapes: 0.367 Sensitivity ContextFold: 0.717 RNAshapes: 0.285 Positive Predictive Value ContextFold: 0.794 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RNASLOpt Matthews Correlation Coefficient ContextFold: 0.754 RNASLOpt: 0.364 Sensitivity ContextFold: 0.717 RNASLOpt: 0.261 Positive Predictive Value ContextFold: 0.794 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Multilign(20) Matthews Correlation Coefficient ContextFold: 0.754 Multilign(20): 0.350 Sensitivity ContextFold: 0.717 Multilign(20): 0.161 Positive Predictive Value ContextFold: 0.794 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Murlet(20) Matthews Correlation Coefficient ContextFold: 0.754 Murlet(20): 0.321 Sensitivity ContextFold: 0.717 Murlet(20): 0.131 Positive Predictive Value ContextFold: 0.794 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RNAwolf Matthews Correlation Coefficient ContextFold: 0.754 RNAwolf: 0.310 Sensitivity ContextFold: 0.717 RNAwolf: 0.261 Positive Predictive Value ContextFold: 0.794 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RSpredict(seed) Matthews Correlation Coefficient ContextFold: 0.754 RSpredict(seed): 0.295 Sensitivity ContextFold: 0.717 RSpredict(seed): 0.146 Positive Predictive Value ContextFold: 0.794 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs CMfinder(20) Matthews Correlation Coefficient ContextFold: 0.754 CMfinder(20): 0.292 Sensitivity ContextFold: 0.717 CMfinder(20): 0.107 Positive Predictive Value ContextFold: 0.794 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Vsfold4 Matthews Correlation Coefficient ContextFold: 0.754 Vsfold4: 0.270 Sensitivity ContextFold: 0.717 Vsfold4: 0.198 Positive Predictive Value ContextFold: 0.794 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Vsfold5 Matthews Correlation Coefficient ContextFold: 0.754 Vsfold5: 0.260 Sensitivity ContextFold: 0.717 Vsfold5: 0.195 Positive Predictive Value ContextFold: 0.794 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RNASampler(20) Matthews Correlation Coefficient ContextFold: 0.754 RNASampler(20): 0.246 Sensitivity ContextFold: 0.717 RNASampler(20): 0.069 Positive Predictive Value ContextFold: 0.794 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs HotKnots Matthews Correlation Coefficient ContextFold: 0.754 HotKnots: 0.212 Sensitivity ContextFold: 0.717 HotKnots: 0.069 Positive Predictive Value ContextFold: 0.794 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Mastr(20) Matthews Correlation Coefficient ContextFold: 0.754 Mastr(20): 0.187 Sensitivity ContextFold: 0.717 Mastr(20): 0.044 Positive Predictive Value ContextFold: 0.794 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Cylofold Matthews Correlation Coefficient ContextFold: 0.754 Cylofold: 0.178 Sensitivity ContextFold: 0.717 Cylofold: 0.053 Positive Predictive Value ContextFold: 0.794 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Pknots Matthews Correlation Coefficient ContextFold: 0.754 Pknots: 0.165 Sensitivity ContextFold: 0.717 Pknots: 0.041 Positive Predictive Value ContextFold: 0.794 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Alterna Matthews Correlation Coefficient ContextFold: 0.754 Alterna: 0.145 Sensitivity ContextFold: 0.717 Alterna: 0.036 Positive Predictive Value ContextFold: 0.794 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs MCFold Matthews Correlation Coefficient ContextFold: 0.754 MCFold: 0.138 Sensitivity ContextFold: 0.717 MCFold: 0.044 Positive Predictive Value ContextFold: 0.794 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RDfolder Matthews Correlation Coefficient ContextFold: 0.754 RDfolder: 0.138 Sensitivity ContextFold: 0.717 RDfolder: 0.031 Positive Predictive Value ContextFold: 0.794 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Murlet(seed) Matthews Correlation Coefficient ContextFold: 0.754 Murlet(seed): 0.110 Sensitivity ContextFold: 0.717 Murlet(seed): 0.015 Positive Predictive Value ContextFold: 0.794 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs CMfinder(seed) Matthews Correlation Coefficient ContextFold: 0.754 CMfinder(seed): 0.111 Sensitivity ContextFold: 0.717 CMfinder(seed): 0.016 Positive Predictive Value ContextFold: 0.794 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs TurboFold(seed) Matthews Correlation Coefficient ContextFold: 0.754 TurboFold(seed): 0.106 Sensitivity ContextFold: 0.717 TurboFold(seed): 0.014 Positive Predictive Value ContextFold: 0.794 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs PPfold(seed) Matthews Correlation Coefficient ContextFold: 0.754 PPfold(seed): 0.097 Sensitivity ContextFold: 0.717 PPfold(seed): 0.012 Positive Predictive Value ContextFold: 0.794 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Carnac(seed) Matthews Correlation Coefficient ContextFold: 0.754 Carnac(seed): 0.093 Sensitivity ContextFold: 0.717 Carnac(seed): 0.010 Positive Predictive Value ContextFold: 0.794 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs RNASampler(seed) Matthews Correlation Coefficient ContextFold: 0.754 RNASampler(seed): 0.088 Sensitivity ContextFold: 0.717 RNASampler(seed): 0.009 Positive Predictive Value ContextFold: 0.794 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Mastr(seed) Matthews Correlation Coefficient ContextFold: 0.754 Mastr(seed): 0.072 Sensitivity ContextFold: 0.717 Mastr(seed): 0.006 Positive Predictive Value ContextFold: 0.794 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs NanoFolder Matthews Correlation Coefficient ContextFold: 0.754 NanoFolder: 0.068 Sensitivity ContextFold: 0.717 NanoFolder: 0.027 Positive Predictive Value ContextFold: 0.794 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ContextFold vs Multilign(seed) Matthews Correlation Coefficient ContextFold: 0.754 Multilign(seed): 0.059 Sensitivity ContextFold: 0.717 Multilign(seed): 0.005 Positive Predictive Value ContextFold: 0.794 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
PETfold_pre2.0(seed)	1242 ContextFold vs PETfold_pre2.0(seed) Matthews Correlation Coefficient ContextFold: 0.754 PETfold_pre2.0(seed): 0.737 Sensitivity ContextFold: 0.717 PETfold_pre2.0(seed): 0.667 Positive Predictive Value ContextFold: 0.794 PETfold_pre2.0(seed): 0.814 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ PETfold_pre2.0(seed) vs CentroidAlifold(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 CentroidAlifold(seed): 0.611 Sensitivity PETfold_pre2.0(seed): 0.667 CentroidAlifold(seed): 0.414 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs IPknot Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 IPknot: 0.607 Sensitivity PETfold_pre2.0(seed): 0.667 IPknot: 0.551 Positive Predictive Value PETfold_pre2.0(seed): 0.814 IPknot: 0.670 Number of pairs reference - predicted secondary structure: 1242 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): 0.737 PETfold_pre2.0(20): 0.575 Sensitivity PETfold_pre2.0(seed): 0.667 PETfold_pre2.0(20): 0.410 Positive Predictive Value PETfold_pre2.0(seed): 0.814 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs CentroidFold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 CentroidFold: 0.571 Sensitivity PETfold_pre2.0(seed): 0.667 CentroidFold: 0.515 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CentroidFold: 0.633 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs CentroidAlifold(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 CentroidAlifold(20): 0.573 Sensitivity PETfold_pre2.0(seed): 0.667 CentroidAlifold(20): 0.369 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs CentroidHomfold‑LAST Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 CentroidHomfold‑LAST: 0.560 Sensitivity PETfold_pre2.0(seed): 0.667 CentroidHomfold‑LAST: 0.359 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CentroidHomfold‑LAST: 0.874 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Contrafold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Contrafold: 0.556 Sensitivity PETfold_pre2.0(seed): 0.667 Contrafold: 0.542 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Contrafold: 0.571 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs MXScarna(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 MXScarna(seed): 0.536 Sensitivity PETfold_pre2.0(seed): 0.667 MXScarna(seed): 0.382 Positive Predictive Value PETfold_pre2.0(seed): 0.814 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RNAalifold(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RNAalifold(20): 0.532 Sensitivity PETfold_pre2.0(seed): 0.667 RNAalifold(20): 0.359 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Sfold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Sfold: 0.527 Sensitivity PETfold_pre2.0(seed): 0.667 Sfold: 0.477 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RNAalifold(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RNAalifold(seed): 0.523 Sensitivity PETfold_pre2.0(seed): 0.667 RNAalifold(seed): 0.328 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs MaxExpect Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 MaxExpect: 0.516 Sensitivity PETfold_pre2.0(seed): 0.667 MaxExpect: 0.505 Positive Predictive Value PETfold_pre2.0(seed): 0.814 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs ProbKnot Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 ProbKnot: 0.512 Sensitivity PETfold_pre2.0(seed): 0.667 ProbKnot: 0.508 Positive Predictive Value PETfold_pre2.0(seed): 0.814 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs MXScarna(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 MXScarna(20): 0.500 Sensitivity PETfold_pre2.0(seed): 0.667 MXScarna(20): 0.353 Positive Predictive Value PETfold_pre2.0(seed): 0.814 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs UNAFold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 UNAFold: 0.494 Sensitivity PETfold_pre2.0(seed): 0.667 UNAFold: 0.491 Positive Predictive Value PETfold_pre2.0(seed): 0.814 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Fold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Fold: 0.493 Sensitivity PETfold_pre2.0(seed): 0.667 Fold: 0.496 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RNAfold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RNAfold: 0.485 Sensitivity PETfold_pre2.0(seed): 0.667 RNAfold: 0.486 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs PknotsRG Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 PknotsRG: 0.474 Sensitivity PETfold_pre2.0(seed): 0.667 PknotsRG: 0.440 Positive Predictive Value PETfold_pre2.0(seed): 0.814 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs CRWrnafold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 CRWrnafold: 0.430 Sensitivity PETfold_pre2.0(seed): 0.667 CRWrnafold: 0.379 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RNAsubopt Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RNAsubopt: 0.422 Sensitivity PETfold_pre2.0(seed): 0.667 RNAsubopt: 0.344 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs TurboFold(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 TurboFold(20): 0.419 Sensitivity PETfold_pre2.0(seed): 0.667 TurboFold(20): 0.210 Positive Predictive Value PETfold_pre2.0(seed): 0.814 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs PPfold(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 PPfold(20): 0.416 Sensitivity PETfold_pre2.0(seed): 0.667 PPfold(20): 0.197 Positive Predictive Value PETfold_pre2.0(seed): 0.814 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Afold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Afold: 0.408 Sensitivity PETfold_pre2.0(seed): 0.667 Afold: 0.343 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Carnac(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Carnac(20): 0.401 Sensitivity PETfold_pre2.0(seed): 0.667 Carnac(20): 0.180 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs McQFold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 McQFold: 0.389 Sensitivity PETfold_pre2.0(seed): 0.667 McQFold: 0.308 Positive Predictive Value PETfold_pre2.0(seed): 0.814 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RSpredict(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RSpredict(20): 0.377 Sensitivity PETfold_pre2.0(seed): 0.667 RSpredict(20): 0.241 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RNAshapes Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RNAshapes: 0.367 Sensitivity PETfold_pre2.0(seed): 0.667 RNAshapes: 0.285 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RNASLOpt Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RNASLOpt: 0.364 Sensitivity PETfold_pre2.0(seed): 0.667 RNASLOpt: 0.261 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Multilign(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Multilign(20): 0.350 Sensitivity PETfold_pre2.0(seed): 0.667 Multilign(20): 0.161 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Murlet(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Murlet(20): 0.321 Sensitivity PETfold_pre2.0(seed): 0.667 Murlet(20): 0.131 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RNAwolf Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RNAwolf: 0.310 Sensitivity PETfold_pre2.0(seed): 0.667 RNAwolf: 0.261 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RSpredict(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RSpredict(seed): 0.295 Sensitivity PETfold_pre2.0(seed): 0.667 RSpredict(seed): 0.146 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs CMfinder(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 CMfinder(20): 0.292 Sensitivity PETfold_pre2.0(seed): 0.667 CMfinder(20): 0.107 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Vsfold4 Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Vsfold4: 0.270 Sensitivity PETfold_pre2.0(seed): 0.667 Vsfold4: 0.198 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Vsfold5 Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Vsfold5: 0.260 Sensitivity PETfold_pre2.0(seed): 0.667 Vsfold5: 0.195 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RNASampler(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RNASampler(20): 0.246 Sensitivity PETfold_pre2.0(seed): 0.667 RNASampler(20): 0.069 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs HotKnots Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 HotKnots: 0.212 Sensitivity PETfold_pre2.0(seed): 0.667 HotKnots: 0.069 Positive Predictive Value PETfold_pre2.0(seed): 0.814 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Mastr(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Mastr(20): 0.187 Sensitivity PETfold_pre2.0(seed): 0.667 Mastr(20): 0.044 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Cylofold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Cylofold: 0.178 Sensitivity PETfold_pre2.0(seed): 0.667 Cylofold: 0.053 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Pknots Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Pknots: 0.165 Sensitivity PETfold_pre2.0(seed): 0.667 Pknots: 0.041 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Alterna Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Alterna: 0.145 Sensitivity PETfold_pre2.0(seed): 0.667 Alterna: 0.036 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs MCFold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 MCFold: 0.138 Sensitivity PETfold_pre2.0(seed): 0.667 MCFold: 0.044 Positive Predictive Value PETfold_pre2.0(seed): 0.814 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RDfolder Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RDfolder: 0.138 Sensitivity PETfold_pre2.0(seed): 0.667 RDfolder: 0.031 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Murlet(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Murlet(seed): 0.110 Sensitivity PETfold_pre2.0(seed): 0.667 Murlet(seed): 0.015 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs CMfinder(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 CMfinder(seed): 0.111 Sensitivity PETfold_pre2.0(seed): 0.667 CMfinder(seed): 0.016 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs TurboFold(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 TurboFold(seed): 0.106 Sensitivity PETfold_pre2.0(seed): 0.667 TurboFold(seed): 0.014 Positive Predictive Value PETfold_pre2.0(seed): 0.814 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs PPfold(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 PPfold(seed): 0.097 Sensitivity PETfold_pre2.0(seed): 0.667 PPfold(seed): 0.012 Positive Predictive Value PETfold_pre2.0(seed): 0.814 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Carnac(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Carnac(seed): 0.093 Sensitivity PETfold_pre2.0(seed): 0.667 Carnac(seed): 0.010 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs RNASampler(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RNASampler(seed): 0.088 Sensitivity PETfold_pre2.0(seed): 0.667 RNASampler(seed): 0.009 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Mastr(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Mastr(seed): 0.072 Sensitivity PETfold_pre2.0(seed): 0.667 Mastr(seed): 0.006 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs NanoFolder Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 NanoFolder: 0.068 Sensitivity PETfold_pre2.0(seed): 0.667 NanoFolder: 0.027 Positive Predictive Value PETfold_pre2.0(seed): 0.814 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(seed) vs Multilign(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Multilign(seed): 0.059 Sensitivity PETfold_pre2.0(seed): 0.667 Multilign(seed): 0.005 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
CentroidAlifold(seed)	1242 ContextFold vs CentroidAlifold(seed) Matthews Correlation Coefficient ContextFold: 0.754 CentroidAlifold(seed): 0.611 Sensitivity ContextFold: 0.717 CentroidAlifold(seed): 0.414 Positive Predictive Value ContextFold: 0.794 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs CentroidAlifold(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 CentroidAlifold(seed): 0.611 Sensitivity PETfold_pre2.0(seed): 0.667 CentroidAlifold(seed): 0.414 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CentroidAlifold(seed): 0.901 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ CentroidAlifold(seed) vs IPknot Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 IPknot: 0.607 Sensitivity CentroidAlifold(seed): 0.414 IPknot: 0.551 Positive Predictive Value CentroidAlifold(seed): 0.901 IPknot: 0.670 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 4.01962644653e-06	+ CentroidAlifold(seed) vs PETfold_pre2.0(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 PETfold_pre2.0(20): 0.575 Sensitivity CentroidAlifold(seed): 0.414 PETfold_pre2.0(20): 0.410 Positive Predictive Value CentroidAlifold(seed): 0.901 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs CentroidFold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 CentroidFold: 0.571 Sensitivity CentroidAlifold(seed): 0.414 CentroidFold: 0.515 Positive Predictive Value CentroidAlifold(seed): 0.901 CentroidFold: 0.633 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs CentroidAlifold(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 CentroidAlifold(20): 0.573 Sensitivity CentroidAlifold(seed): 0.414 CentroidAlifold(20): 0.369 Positive Predictive Value CentroidAlifold(seed): 0.901 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs CentroidHomfold‑LAST Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 CentroidHomfold‑LAST: 0.560 Sensitivity CentroidAlifold(seed): 0.414 CentroidHomfold‑LAST: 0.359 Positive Predictive Value CentroidAlifold(seed): 0.901 CentroidHomfold‑LAST: 0.874 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Contrafold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Contrafold: 0.556 Sensitivity CentroidAlifold(seed): 0.414 Contrafold: 0.542 Positive Predictive Value CentroidAlifold(seed): 0.901 Contrafold: 0.571 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs MXScarna(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 MXScarna(seed): 0.536 Sensitivity CentroidAlifold(seed): 0.414 MXScarna(seed): 0.382 Positive Predictive Value CentroidAlifold(seed): 0.901 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RNAalifold(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RNAalifold(20): 0.532 Sensitivity CentroidAlifold(seed): 0.414 RNAalifold(20): 0.359 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Sfold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Sfold: 0.527 Sensitivity CentroidAlifold(seed): 0.414 Sfold: 0.477 Positive Predictive Value CentroidAlifold(seed): 0.901 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RNAalifold(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RNAalifold(seed): 0.523 Sensitivity CentroidAlifold(seed): 0.414 RNAalifold(seed): 0.328 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs MaxExpect Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 MaxExpect: 0.516 Sensitivity CentroidAlifold(seed): 0.414 MaxExpect: 0.505 Positive Predictive Value CentroidAlifold(seed): 0.901 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs ProbKnot Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 ProbKnot: 0.512 Sensitivity CentroidAlifold(seed): 0.414 ProbKnot: 0.508 Positive Predictive Value CentroidAlifold(seed): 0.901 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs MXScarna(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 MXScarna(20): 0.500 Sensitivity CentroidAlifold(seed): 0.414 MXScarna(20): 0.353 Positive Predictive Value CentroidAlifold(seed): 0.901 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs UNAFold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 UNAFold: 0.494 Sensitivity CentroidAlifold(seed): 0.414 UNAFold: 0.491 Positive Predictive Value CentroidAlifold(seed): 0.901 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Fold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Fold: 0.493 Sensitivity CentroidAlifold(seed): 0.414 Fold: 0.496 Positive Predictive Value CentroidAlifold(seed): 0.901 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RNAfold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RNAfold: 0.485 Sensitivity CentroidAlifold(seed): 0.414 RNAfold: 0.486 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs PknotsRG Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 PknotsRG: 0.474 Sensitivity CentroidAlifold(seed): 0.414 PknotsRG: 0.440 Positive Predictive Value CentroidAlifold(seed): 0.901 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs CRWrnafold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 CRWrnafold: 0.430 Sensitivity CentroidAlifold(seed): 0.414 CRWrnafold: 0.379 Positive Predictive Value CentroidAlifold(seed): 0.901 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RNAsubopt Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RNAsubopt: 0.422 Sensitivity CentroidAlifold(seed): 0.414 RNAsubopt: 0.344 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs TurboFold(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 TurboFold(20): 0.419 Sensitivity CentroidAlifold(seed): 0.414 TurboFold(20): 0.210 Positive Predictive Value CentroidAlifold(seed): 0.901 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs PPfold(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 PPfold(20): 0.416 Sensitivity CentroidAlifold(seed): 0.414 PPfold(20): 0.197 Positive Predictive Value CentroidAlifold(seed): 0.901 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Afold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Afold: 0.408 Sensitivity CentroidAlifold(seed): 0.414 Afold: 0.343 Positive Predictive Value CentroidAlifold(seed): 0.901 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Carnac(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Carnac(20): 0.401 Sensitivity CentroidAlifold(seed): 0.414 Carnac(20): 0.180 Positive Predictive Value CentroidAlifold(seed): 0.901 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs McQFold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 McQFold: 0.389 Sensitivity CentroidAlifold(seed): 0.414 McQFold: 0.308 Positive Predictive Value CentroidAlifold(seed): 0.901 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RSpredict(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RSpredict(20): 0.377 Sensitivity CentroidAlifold(seed): 0.414 RSpredict(20): 0.241 Positive Predictive Value CentroidAlifold(seed): 0.901 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RNAshapes Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RNAshapes: 0.367 Sensitivity CentroidAlifold(seed): 0.414 RNAshapes: 0.285 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RNASLOpt Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RNASLOpt: 0.364 Sensitivity CentroidAlifold(seed): 0.414 RNASLOpt: 0.261 Positive Predictive Value CentroidAlifold(seed): 0.901 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Multilign(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Multilign(20): 0.350 Sensitivity CentroidAlifold(seed): 0.414 Multilign(20): 0.161 Positive Predictive Value CentroidAlifold(seed): 0.901 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Murlet(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Murlet(20): 0.321 Sensitivity CentroidAlifold(seed): 0.414 Murlet(20): 0.131 Positive Predictive Value CentroidAlifold(seed): 0.901 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RNAwolf Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RNAwolf: 0.310 Sensitivity CentroidAlifold(seed): 0.414 RNAwolf: 0.261 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RSpredict(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RSpredict(seed): 0.295 Sensitivity CentroidAlifold(seed): 0.414 RSpredict(seed): 0.146 Positive Predictive Value CentroidAlifold(seed): 0.901 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs CMfinder(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 CMfinder(20): 0.292 Sensitivity CentroidAlifold(seed): 0.414 CMfinder(20): 0.107 Positive Predictive Value CentroidAlifold(seed): 0.901 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Vsfold4 Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Vsfold4: 0.270 Sensitivity CentroidAlifold(seed): 0.414 Vsfold4: 0.198 Positive Predictive Value CentroidAlifold(seed): 0.901 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Vsfold5 Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Vsfold5: 0.260 Sensitivity CentroidAlifold(seed): 0.414 Vsfold5: 0.195 Positive Predictive Value CentroidAlifold(seed): 0.901 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RNASampler(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RNASampler(20): 0.246 Sensitivity CentroidAlifold(seed): 0.414 RNASampler(20): 0.069 Positive Predictive Value CentroidAlifold(seed): 0.901 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs HotKnots Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 HotKnots: 0.212 Sensitivity CentroidAlifold(seed): 0.414 HotKnots: 0.069 Positive Predictive Value CentroidAlifold(seed): 0.901 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Mastr(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Mastr(20): 0.187 Sensitivity CentroidAlifold(seed): 0.414 Mastr(20): 0.044 Positive Predictive Value CentroidAlifold(seed): 0.901 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Cylofold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Cylofold: 0.178 Sensitivity CentroidAlifold(seed): 0.414 Cylofold: 0.053 Positive Predictive Value CentroidAlifold(seed): 0.901 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Pknots Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Pknots: 0.165 Sensitivity CentroidAlifold(seed): 0.414 Pknots: 0.041 Positive Predictive Value CentroidAlifold(seed): 0.901 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Alterna Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Alterna: 0.145 Sensitivity CentroidAlifold(seed): 0.414 Alterna: 0.036 Positive Predictive Value CentroidAlifold(seed): 0.901 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs MCFold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 MCFold: 0.138 Sensitivity CentroidAlifold(seed): 0.414 MCFold: 0.044 Positive Predictive Value CentroidAlifold(seed): 0.901 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RDfolder Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RDfolder: 0.138 Sensitivity CentroidAlifold(seed): 0.414 RDfolder: 0.031 Positive Predictive Value CentroidAlifold(seed): 0.901 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Murlet(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Murlet(seed): 0.110 Sensitivity CentroidAlifold(seed): 0.414 Murlet(seed): 0.015 Positive Predictive Value CentroidAlifold(seed): 0.901 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs CMfinder(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 CMfinder(seed): 0.111 Sensitivity CentroidAlifold(seed): 0.414 CMfinder(seed): 0.016 Positive Predictive Value CentroidAlifold(seed): 0.901 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs TurboFold(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 TurboFold(seed): 0.106 Sensitivity CentroidAlifold(seed): 0.414 TurboFold(seed): 0.014 Positive Predictive Value CentroidAlifold(seed): 0.901 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs PPfold(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 PPfold(seed): 0.097 Sensitivity CentroidAlifold(seed): 0.414 PPfold(seed): 0.012 Positive Predictive Value CentroidAlifold(seed): 0.901 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Carnac(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Carnac(seed): 0.093 Sensitivity CentroidAlifold(seed): 0.414 Carnac(seed): 0.010 Positive Predictive Value CentroidAlifold(seed): 0.901 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs RNASampler(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RNASampler(seed): 0.088 Sensitivity CentroidAlifold(seed): 0.414 RNASampler(seed): 0.009 Positive Predictive Value CentroidAlifold(seed): 0.901 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Mastr(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Mastr(seed): 0.072 Sensitivity CentroidAlifold(seed): 0.414 Mastr(seed): 0.006 Positive Predictive Value CentroidAlifold(seed): 0.901 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs NanoFolder Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 NanoFolder: 0.068 Sensitivity CentroidAlifold(seed): 0.414 NanoFolder: 0.027 Positive Predictive Value CentroidAlifold(seed): 0.901 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(seed) vs Multilign(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Multilign(seed): 0.059 Sensitivity CentroidAlifold(seed): 0.414 Multilign(seed): 0.005 Positive Predictive Value CentroidAlifold(seed): 0.901 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
IPknot	1242 ContextFold vs IPknot Matthews Correlation Coefficient ContextFold: 0.754 IPknot: 0.607 Sensitivity ContextFold: 0.717 IPknot: 0.551 Positive Predictive Value ContextFold: 0.794 IPknot: 0.670 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs IPknot Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 IPknot: 0.607 Sensitivity PETfold_pre2.0(seed): 0.667 IPknot: 0.551 Positive Predictive Value PETfold_pre2.0(seed): 0.814 IPknot: 0.670 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs IPknot Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 IPknot: 0.607 Sensitivity CentroidAlifold(seed): 0.414 IPknot: 0.551 Positive Predictive Value CentroidAlifold(seed): 0.901 IPknot: 0.670 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 4.01962644653e-06		+ IPknot vs PETfold_pre2.0(20) Matthews Correlation Coefficient IPknot: 0.607 PETfold_pre2.0(20): 0.575 Sensitivity IPknot: 0.551 PETfold_pre2.0(20): 0.410 Positive Predictive Value IPknot: 0.670 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs CentroidFold Matthews Correlation Coefficient IPknot: 0.607 CentroidFold: 0.571 Sensitivity IPknot: 0.551 CentroidFold: 0.515 Positive Predictive Value IPknot: 0.670 CentroidFold: 0.633 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs CentroidAlifold(20) Matthews Correlation Coefficient IPknot: 0.607 CentroidAlifold(20): 0.573 Sensitivity IPknot: 0.551 CentroidAlifold(20): 0.369 Positive Predictive Value IPknot: 0.670 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs CentroidHomfold‑LAST Matthews Correlation Coefficient IPknot: 0.607 CentroidHomfold‑LAST: 0.560 Sensitivity IPknot: 0.551 CentroidHomfold‑LAST: 0.359 Positive Predictive Value IPknot: 0.670 CentroidHomfold‑LAST: 0.874 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Contrafold Matthews Correlation Coefficient IPknot: 0.607 Contrafold: 0.556 Sensitivity IPknot: 0.551 Contrafold: 0.542 Positive Predictive Value IPknot: 0.670 Contrafold: 0.571 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs MXScarna(seed) Matthews Correlation Coefficient IPknot: 0.607 MXScarna(seed): 0.536 Sensitivity IPknot: 0.551 MXScarna(seed): 0.382 Positive Predictive Value IPknot: 0.670 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RNAalifold(20) Matthews Correlation Coefficient IPknot: 0.607 RNAalifold(20): 0.532 Sensitivity IPknot: 0.551 RNAalifold(20): 0.359 Positive Predictive Value IPknot: 0.670 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Sfold Matthews Correlation Coefficient IPknot: 0.607 Sfold: 0.527 Sensitivity IPknot: 0.551 Sfold: 0.477 Positive Predictive Value IPknot: 0.670 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RNAalifold(seed) Matthews Correlation Coefficient IPknot: 0.607 RNAalifold(seed): 0.523 Sensitivity IPknot: 0.551 RNAalifold(seed): 0.328 Positive Predictive Value IPknot: 0.670 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs MaxExpect Matthews Correlation Coefficient IPknot: 0.607 MaxExpect: 0.516 Sensitivity IPknot: 0.551 MaxExpect: 0.505 Positive Predictive Value IPknot: 0.670 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs ProbKnot Matthews Correlation Coefficient IPknot: 0.607 ProbKnot: 0.512 Sensitivity IPknot: 0.551 ProbKnot: 0.508 Positive Predictive Value IPknot: 0.670 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs MXScarna(20) Matthews Correlation Coefficient IPknot: 0.607 MXScarna(20): 0.500 Sensitivity IPknot: 0.551 MXScarna(20): 0.353 Positive Predictive Value IPknot: 0.670 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs UNAFold Matthews Correlation Coefficient IPknot: 0.607 UNAFold: 0.494 Sensitivity IPknot: 0.551 UNAFold: 0.491 Positive Predictive Value IPknot: 0.670 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Fold Matthews Correlation Coefficient IPknot: 0.607 Fold: 0.493 Sensitivity IPknot: 0.551 Fold: 0.496 Positive Predictive Value IPknot: 0.670 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RNAfold Matthews Correlation Coefficient IPknot: 0.607 RNAfold: 0.485 Sensitivity IPknot: 0.551 RNAfold: 0.486 Positive Predictive Value IPknot: 0.670 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs PknotsRG Matthews Correlation Coefficient IPknot: 0.607 PknotsRG: 0.474 Sensitivity IPknot: 0.551 PknotsRG: 0.440 Positive Predictive Value IPknot: 0.670 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs CRWrnafold Matthews Correlation Coefficient IPknot: 0.607 CRWrnafold: 0.430 Sensitivity IPknot: 0.551 CRWrnafold: 0.379 Positive Predictive Value IPknot: 0.670 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RNAsubopt Matthews Correlation Coefficient IPknot: 0.607 RNAsubopt: 0.422 Sensitivity IPknot: 0.551 RNAsubopt: 0.344 Positive Predictive Value IPknot: 0.670 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs TurboFold(20) Matthews Correlation Coefficient IPknot: 0.607 TurboFold(20): 0.419 Sensitivity IPknot: 0.551 TurboFold(20): 0.210 Positive Predictive Value IPknot: 0.670 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs PPfold(20) Matthews Correlation Coefficient IPknot: 0.607 PPfold(20): 0.416 Sensitivity IPknot: 0.551 PPfold(20): 0.197 Positive Predictive Value IPknot: 0.670 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Afold Matthews Correlation Coefficient IPknot: 0.607 Afold: 0.408 Sensitivity IPknot: 0.551 Afold: 0.343 Positive Predictive Value IPknot: 0.670 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Carnac(20) Matthews Correlation Coefficient IPknot: 0.607 Carnac(20): 0.401 Sensitivity IPknot: 0.551 Carnac(20): 0.180 Positive Predictive Value IPknot: 0.670 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs McQFold Matthews Correlation Coefficient IPknot: 0.607 McQFold: 0.389 Sensitivity IPknot: 0.551 McQFold: 0.308 Positive Predictive Value IPknot: 0.670 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RSpredict(20) Matthews Correlation Coefficient IPknot: 0.607 RSpredict(20): 0.377 Sensitivity IPknot: 0.551 RSpredict(20): 0.241 Positive Predictive Value IPknot: 0.670 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RNAshapes Matthews Correlation Coefficient IPknot: 0.607 RNAshapes: 0.367 Sensitivity IPknot: 0.551 RNAshapes: 0.285 Positive Predictive Value IPknot: 0.670 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RNASLOpt Matthews Correlation Coefficient IPknot: 0.607 RNASLOpt: 0.364 Sensitivity IPknot: 0.551 RNASLOpt: 0.261 Positive Predictive Value IPknot: 0.670 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Multilign(20) Matthews Correlation Coefficient IPknot: 0.607 Multilign(20): 0.350 Sensitivity IPknot: 0.551 Multilign(20): 0.161 Positive Predictive Value IPknot: 0.670 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Murlet(20) Matthews Correlation Coefficient IPknot: 0.607 Murlet(20): 0.321 Sensitivity IPknot: 0.551 Murlet(20): 0.131 Positive Predictive Value IPknot: 0.670 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RNAwolf Matthews Correlation Coefficient IPknot: 0.607 RNAwolf: 0.310 Sensitivity IPknot: 0.551 RNAwolf: 0.261 Positive Predictive Value IPknot: 0.670 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RSpredict(seed) Matthews Correlation Coefficient IPknot: 0.607 RSpredict(seed): 0.295 Sensitivity IPknot: 0.551 RSpredict(seed): 0.146 Positive Predictive Value IPknot: 0.670 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs CMfinder(20) Matthews Correlation Coefficient IPknot: 0.607 CMfinder(20): 0.292 Sensitivity IPknot: 0.551 CMfinder(20): 0.107 Positive Predictive Value IPknot: 0.670 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Vsfold4 Matthews Correlation Coefficient IPknot: 0.607 Vsfold4: 0.270 Sensitivity IPknot: 0.551 Vsfold4: 0.198 Positive Predictive Value IPknot: 0.670 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Vsfold5 Matthews Correlation Coefficient IPknot: 0.607 Vsfold5: 0.260 Sensitivity IPknot: 0.551 Vsfold5: 0.195 Positive Predictive Value IPknot: 0.670 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RNASampler(20) Matthews Correlation Coefficient IPknot: 0.607 RNASampler(20): 0.246 Sensitivity IPknot: 0.551 RNASampler(20): 0.069 Positive Predictive Value IPknot: 0.670 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs HotKnots Matthews Correlation Coefficient IPknot: 0.607 HotKnots: 0.212 Sensitivity IPknot: 0.551 HotKnots: 0.069 Positive Predictive Value IPknot: 0.670 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Mastr(20) Matthews Correlation Coefficient IPknot: 0.607 Mastr(20): 0.187 Sensitivity IPknot: 0.551 Mastr(20): 0.044 Positive Predictive Value IPknot: 0.670 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Cylofold Matthews Correlation Coefficient IPknot: 0.607 Cylofold: 0.178 Sensitivity IPknot: 0.551 Cylofold: 0.053 Positive Predictive Value IPknot: 0.670 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Pknots Matthews Correlation Coefficient IPknot: 0.607 Pknots: 0.165 Sensitivity IPknot: 0.551 Pknots: 0.041 Positive Predictive Value IPknot: 0.670 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Alterna Matthews Correlation Coefficient IPknot: 0.607 Alterna: 0.145 Sensitivity IPknot: 0.551 Alterna: 0.036 Positive Predictive Value IPknot: 0.670 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs MCFold Matthews Correlation Coefficient IPknot: 0.607 MCFold: 0.138 Sensitivity IPknot: 0.551 MCFold: 0.044 Positive Predictive Value IPknot: 0.670 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RDfolder Matthews Correlation Coefficient IPknot: 0.607 RDfolder: 0.138 Sensitivity IPknot: 0.551 RDfolder: 0.031 Positive Predictive Value IPknot: 0.670 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Murlet(seed) Matthews Correlation Coefficient IPknot: 0.607 Murlet(seed): 0.110 Sensitivity IPknot: 0.551 Murlet(seed): 0.015 Positive Predictive Value IPknot: 0.670 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs CMfinder(seed) Matthews Correlation Coefficient IPknot: 0.607 CMfinder(seed): 0.111 Sensitivity IPknot: 0.551 CMfinder(seed): 0.016 Positive Predictive Value IPknot: 0.670 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs TurboFold(seed) Matthews Correlation Coefficient IPknot: 0.607 TurboFold(seed): 0.106 Sensitivity IPknot: 0.551 TurboFold(seed): 0.014 Positive Predictive Value IPknot: 0.670 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs PPfold(seed) Matthews Correlation Coefficient IPknot: 0.607 PPfold(seed): 0.097 Sensitivity IPknot: 0.551 PPfold(seed): 0.012 Positive Predictive Value IPknot: 0.670 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Carnac(seed) Matthews Correlation Coefficient IPknot: 0.607 Carnac(seed): 0.093 Sensitivity IPknot: 0.551 Carnac(seed): 0.010 Positive Predictive Value IPknot: 0.670 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs RNASampler(seed) Matthews Correlation Coefficient IPknot: 0.607 RNASampler(seed): 0.088 Sensitivity IPknot: 0.551 RNASampler(seed): 0.009 Positive Predictive Value IPknot: 0.670 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Mastr(seed) Matthews Correlation Coefficient IPknot: 0.607 Mastr(seed): 0.072 Sensitivity IPknot: 0.551 Mastr(seed): 0.006 Positive Predictive Value IPknot: 0.670 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs NanoFolder Matthews Correlation Coefficient IPknot: 0.607 NanoFolder: 0.068 Sensitivity IPknot: 0.551 NanoFolder: 0.027 Positive Predictive Value IPknot: 0.670 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ IPknot vs Multilign(seed) Matthews Correlation Coefficient IPknot: 0.607 Multilign(seed): 0.059 Sensitivity IPknot: 0.551 Multilign(seed): 0.005 Positive Predictive Value IPknot: 0.670 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
PETfold_pre2.0(20)	1242 ContextFold vs PETfold_pre2.0(20) Matthews Correlation Coefficient ContextFold: 0.754 PETfold_pre2.0(20): 0.575 Sensitivity ContextFold: 0.717 PETfold_pre2.0(20): 0.410 Positive Predictive Value ContextFold: 0.794 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs PETfold_pre2.0(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 PETfold_pre2.0(20): 0.575 Sensitivity PETfold_pre2.0(seed): 0.667 PETfold_pre2.0(20): 0.410 Positive Predictive Value PETfold_pre2.0(seed): 0.814 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs PETfold_pre2.0(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 PETfold_pre2.0(20): 0.575 Sensitivity CentroidAlifold(seed): 0.414 PETfold_pre2.0(20): 0.410 Positive Predictive Value CentroidAlifold(seed): 0.901 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs PETfold_pre2.0(20) Matthews Correlation Coefficient IPknot: 0.607 PETfold_pre2.0(20): 0.575 Sensitivity IPknot: 0.551 PETfold_pre2.0(20): 0.410 Positive Predictive Value IPknot: 0.670 PETfold_pre2.0(20): 0.807 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ PETfold_pre2.0(20) vs CentroidFold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 CentroidFold: 0.571 Sensitivity PETfold_pre2.0(20): 0.410 CentroidFold: 0.515 Positive Predictive Value PETfold_pre2.0(20): 0.807 CentroidFold: 0.633 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 0.000706081118372	+ PETfold_pre2.0(20) vs CentroidAlifold(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 CentroidAlifold(20): 0.573 Sensitivity PETfold_pre2.0(20): 0.410 CentroidAlifold(20): 0.369 Positive Predictive Value PETfold_pre2.0(20): 0.807 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs CentroidHomfold‑LAST Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 CentroidHomfold‑LAST: 0.560 Sensitivity PETfold_pre2.0(20): 0.410 CentroidHomfold‑LAST: 0.359 Positive Predictive Value PETfold_pre2.0(20): 0.807 CentroidHomfold‑LAST: 0.874 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Contrafold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Contrafold: 0.556 Sensitivity PETfold_pre2.0(20): 0.410 Contrafold: 0.542 Positive Predictive Value PETfold_pre2.0(20): 0.807 Contrafold: 0.571 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs MXScarna(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 MXScarna(seed): 0.536 Sensitivity PETfold_pre2.0(20): 0.410 MXScarna(seed): 0.382 Positive Predictive Value PETfold_pre2.0(20): 0.807 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RNAalifold(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RNAalifold(20): 0.532 Sensitivity PETfold_pre2.0(20): 0.410 RNAalifold(20): 0.359 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Sfold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Sfold: 0.527 Sensitivity PETfold_pre2.0(20): 0.410 Sfold: 0.477 Positive Predictive Value PETfold_pre2.0(20): 0.807 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RNAalifold(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RNAalifold(seed): 0.523 Sensitivity PETfold_pre2.0(20): 0.410 RNAalifold(seed): 0.328 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs MaxExpect Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 MaxExpect: 0.516 Sensitivity PETfold_pre2.0(20): 0.410 MaxExpect: 0.505 Positive Predictive Value PETfold_pre2.0(20): 0.807 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs ProbKnot Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 ProbKnot: 0.512 Sensitivity PETfold_pre2.0(20): 0.410 ProbKnot: 0.508 Positive Predictive Value PETfold_pre2.0(20): 0.807 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs MXScarna(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 MXScarna(20): 0.500 Sensitivity PETfold_pre2.0(20): 0.410 MXScarna(20): 0.353 Positive Predictive Value PETfold_pre2.0(20): 0.807 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs UNAFold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 UNAFold: 0.494 Sensitivity PETfold_pre2.0(20): 0.410 UNAFold: 0.491 Positive Predictive Value PETfold_pre2.0(20): 0.807 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Fold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Fold: 0.493 Sensitivity PETfold_pre2.0(20): 0.410 Fold: 0.496 Positive Predictive Value PETfold_pre2.0(20): 0.807 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RNAfold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RNAfold: 0.485 Sensitivity PETfold_pre2.0(20): 0.410 RNAfold: 0.486 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs PknotsRG Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 PknotsRG: 0.474 Sensitivity PETfold_pre2.0(20): 0.410 PknotsRG: 0.440 Positive Predictive Value PETfold_pre2.0(20): 0.807 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs CRWrnafold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 CRWrnafold: 0.430 Sensitivity PETfold_pre2.0(20): 0.410 CRWrnafold: 0.379 Positive Predictive Value PETfold_pre2.0(20): 0.807 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RNAsubopt Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RNAsubopt: 0.422 Sensitivity PETfold_pre2.0(20): 0.410 RNAsubopt: 0.344 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs TurboFold(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 TurboFold(20): 0.419 Sensitivity PETfold_pre2.0(20): 0.410 TurboFold(20): 0.210 Positive Predictive Value PETfold_pre2.0(20): 0.807 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs PPfold(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 PPfold(20): 0.416 Sensitivity PETfold_pre2.0(20): 0.410 PPfold(20): 0.197 Positive Predictive Value PETfold_pre2.0(20): 0.807 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Afold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Afold: 0.408 Sensitivity PETfold_pre2.0(20): 0.410 Afold: 0.343 Positive Predictive Value PETfold_pre2.0(20): 0.807 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Carnac(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Carnac(20): 0.401 Sensitivity PETfold_pre2.0(20): 0.410 Carnac(20): 0.180 Positive Predictive Value PETfold_pre2.0(20): 0.807 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs McQFold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 McQFold: 0.389 Sensitivity PETfold_pre2.0(20): 0.410 McQFold: 0.308 Positive Predictive Value PETfold_pre2.0(20): 0.807 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RSpredict(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RSpredict(20): 0.377 Sensitivity PETfold_pre2.0(20): 0.410 RSpredict(20): 0.241 Positive Predictive Value PETfold_pre2.0(20): 0.807 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RNAshapes Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RNAshapes: 0.367 Sensitivity PETfold_pre2.0(20): 0.410 RNAshapes: 0.285 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RNASLOpt Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RNASLOpt: 0.364 Sensitivity PETfold_pre2.0(20): 0.410 RNASLOpt: 0.261 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Multilign(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Multilign(20): 0.350 Sensitivity PETfold_pre2.0(20): 0.410 Multilign(20): 0.161 Positive Predictive Value PETfold_pre2.0(20): 0.807 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Murlet(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Murlet(20): 0.321 Sensitivity PETfold_pre2.0(20): 0.410 Murlet(20): 0.131 Positive Predictive Value PETfold_pre2.0(20): 0.807 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RNAwolf Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RNAwolf: 0.310 Sensitivity PETfold_pre2.0(20): 0.410 RNAwolf: 0.261 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RSpredict(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RSpredict(seed): 0.295 Sensitivity PETfold_pre2.0(20): 0.410 RSpredict(seed): 0.146 Positive Predictive Value PETfold_pre2.0(20): 0.807 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs CMfinder(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 CMfinder(20): 0.292 Sensitivity PETfold_pre2.0(20): 0.410 CMfinder(20): 0.107 Positive Predictive Value PETfold_pre2.0(20): 0.807 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Vsfold4 Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Vsfold4: 0.270 Sensitivity PETfold_pre2.0(20): 0.410 Vsfold4: 0.198 Positive Predictive Value PETfold_pre2.0(20): 0.807 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Vsfold5 Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Vsfold5: 0.260 Sensitivity PETfold_pre2.0(20): 0.410 Vsfold5: 0.195 Positive Predictive Value PETfold_pre2.0(20): 0.807 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RNASampler(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RNASampler(20): 0.246 Sensitivity PETfold_pre2.0(20): 0.410 RNASampler(20): 0.069 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs HotKnots Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 HotKnots: 0.212 Sensitivity PETfold_pre2.0(20): 0.410 HotKnots: 0.069 Positive Predictive Value PETfold_pre2.0(20): 0.807 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Mastr(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Mastr(20): 0.187 Sensitivity PETfold_pre2.0(20): 0.410 Mastr(20): 0.044 Positive Predictive Value PETfold_pre2.0(20): 0.807 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Cylofold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Cylofold: 0.178 Sensitivity PETfold_pre2.0(20): 0.410 Cylofold: 0.053 Positive Predictive Value PETfold_pre2.0(20): 0.807 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Pknots Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Pknots: 0.165 Sensitivity PETfold_pre2.0(20): 0.410 Pknots: 0.041 Positive Predictive Value PETfold_pre2.0(20): 0.807 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Alterna Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Alterna: 0.145 Sensitivity PETfold_pre2.0(20): 0.410 Alterna: 0.036 Positive Predictive Value PETfold_pre2.0(20): 0.807 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs MCFold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 MCFold: 0.138 Sensitivity PETfold_pre2.0(20): 0.410 MCFold: 0.044 Positive Predictive Value PETfold_pre2.0(20): 0.807 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RDfolder Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RDfolder: 0.138 Sensitivity PETfold_pre2.0(20): 0.410 RDfolder: 0.031 Positive Predictive Value PETfold_pre2.0(20): 0.807 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Murlet(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Murlet(seed): 0.110 Sensitivity PETfold_pre2.0(20): 0.410 Murlet(seed): 0.015 Positive Predictive Value PETfold_pre2.0(20): 0.807 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs CMfinder(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 CMfinder(seed): 0.111 Sensitivity PETfold_pre2.0(20): 0.410 CMfinder(seed): 0.016 Positive Predictive Value PETfold_pre2.0(20): 0.807 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs TurboFold(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 TurboFold(seed): 0.106 Sensitivity PETfold_pre2.0(20): 0.410 TurboFold(seed): 0.014 Positive Predictive Value PETfold_pre2.0(20): 0.807 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs PPfold(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 PPfold(seed): 0.097 Sensitivity PETfold_pre2.0(20): 0.410 PPfold(seed): 0.012 Positive Predictive Value PETfold_pre2.0(20): 0.807 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Carnac(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Carnac(seed): 0.093 Sensitivity PETfold_pre2.0(20): 0.410 Carnac(seed): 0.010 Positive Predictive Value PETfold_pre2.0(20): 0.807 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs RNASampler(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RNASampler(seed): 0.088 Sensitivity PETfold_pre2.0(20): 0.410 RNASampler(seed): 0.009 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Mastr(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Mastr(seed): 0.072 Sensitivity PETfold_pre2.0(20): 0.410 Mastr(seed): 0.006 Positive Predictive Value PETfold_pre2.0(20): 0.807 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs NanoFolder Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 NanoFolder: 0.068 Sensitivity PETfold_pre2.0(20): 0.410 NanoFolder: 0.027 Positive Predictive Value PETfold_pre2.0(20): 0.807 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PETfold_pre2.0(20) vs Multilign(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Multilign(seed): 0.059 Sensitivity PETfold_pre2.0(20): 0.410 Multilign(seed): 0.005 Positive Predictive Value PETfold_pre2.0(20): 0.807 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
CentroidFold	1242 ContextFold vs CentroidFold Matthews Correlation Coefficient ContextFold: 0.754 CentroidFold: 0.571 Sensitivity ContextFold: 0.717 CentroidFold: 0.515 Positive Predictive Value ContextFold: 0.794 CentroidFold: 0.633 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs CentroidFold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 CentroidFold: 0.571 Sensitivity PETfold_pre2.0(seed): 0.667 CentroidFold: 0.515 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CentroidFold: 0.633 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs CentroidFold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 CentroidFold: 0.571 Sensitivity CentroidAlifold(seed): 0.414 CentroidFold: 0.515 Positive Predictive Value CentroidAlifold(seed): 0.901 CentroidFold: 0.633 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs CentroidFold Matthews Correlation Coefficient IPknot: 0.607 CentroidFold: 0.571 Sensitivity IPknot: 0.551 CentroidFold: 0.515 Positive Predictive Value IPknot: 0.670 CentroidFold: 0.633 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs CentroidFold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 CentroidFold: 0.571 Sensitivity PETfold_pre2.0(20): 0.410 CentroidFold: 0.515 Positive Predictive Value PETfold_pre2.0(20): 0.807 CentroidFold: 0.633 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 0.000706081118372		= CentroidAlifold(20) vs CentroidFold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 CentroidFold: 0.571 Sensitivity CentroidAlifold(20): 0.369 CentroidFold: 0.515 Positive Predictive Value CentroidAlifold(20): 0.891 CentroidFold: 0.633 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 0.0167317061725	+ CentroidFold vs CentroidHomfold‑LAST Matthews Correlation Coefficient CentroidFold: 0.571 CentroidHomfold‑LAST: 0.560 Sensitivity CentroidFold: 0.515 CentroidHomfold‑LAST: 0.359 Positive Predictive Value CentroidFold: 0.633 CentroidHomfold‑LAST: 0.874 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Contrafold Matthews Correlation Coefficient CentroidFold: 0.571 Contrafold: 0.556 Sensitivity CentroidFold: 0.515 Contrafold: 0.542 Positive Predictive Value CentroidFold: 0.633 Contrafold: 0.571 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs MXScarna(seed) Matthews Correlation Coefficient CentroidFold: 0.571 MXScarna(seed): 0.536 Sensitivity CentroidFold: 0.515 MXScarna(seed): 0.382 Positive Predictive Value CentroidFold: 0.633 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RNAalifold(20) Matthews Correlation Coefficient CentroidFold: 0.571 RNAalifold(20): 0.532 Sensitivity CentroidFold: 0.515 RNAalifold(20): 0.359 Positive Predictive Value CentroidFold: 0.633 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Sfold Matthews Correlation Coefficient CentroidFold: 0.571 Sfold: 0.527 Sensitivity CentroidFold: 0.515 Sfold: 0.477 Positive Predictive Value CentroidFold: 0.633 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RNAalifold(seed) Matthews Correlation Coefficient CentroidFold: 0.571 RNAalifold(seed): 0.523 Sensitivity CentroidFold: 0.515 RNAalifold(seed): 0.328 Positive Predictive Value CentroidFold: 0.633 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs MaxExpect Matthews Correlation Coefficient CentroidFold: 0.571 MaxExpect: 0.516 Sensitivity CentroidFold: 0.515 MaxExpect: 0.505 Positive Predictive Value CentroidFold: 0.633 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs ProbKnot Matthews Correlation Coefficient CentroidFold: 0.571 ProbKnot: 0.512 Sensitivity CentroidFold: 0.515 ProbKnot: 0.508 Positive Predictive Value CentroidFold: 0.633 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs MXScarna(20) Matthews Correlation Coefficient CentroidFold: 0.571 MXScarna(20): 0.500 Sensitivity CentroidFold: 0.515 MXScarna(20): 0.353 Positive Predictive Value CentroidFold: 0.633 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs UNAFold Matthews Correlation Coefficient CentroidFold: 0.571 UNAFold: 0.494 Sensitivity CentroidFold: 0.515 UNAFold: 0.491 Positive Predictive Value CentroidFold: 0.633 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Fold Matthews Correlation Coefficient CentroidFold: 0.571 Fold: 0.493 Sensitivity CentroidFold: 0.515 Fold: 0.496 Positive Predictive Value CentroidFold: 0.633 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RNAfold Matthews Correlation Coefficient CentroidFold: 0.571 RNAfold: 0.485 Sensitivity CentroidFold: 0.515 RNAfold: 0.486 Positive Predictive Value CentroidFold: 0.633 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs PknotsRG Matthews Correlation Coefficient CentroidFold: 0.571 PknotsRG: 0.474 Sensitivity CentroidFold: 0.515 PknotsRG: 0.440 Positive Predictive Value CentroidFold: 0.633 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs CRWrnafold Matthews Correlation Coefficient CentroidFold: 0.571 CRWrnafold: 0.430 Sensitivity CentroidFold: 0.515 CRWrnafold: 0.379 Positive Predictive Value CentroidFold: 0.633 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RNAsubopt Matthews Correlation Coefficient CentroidFold: 0.571 RNAsubopt: 0.422 Sensitivity CentroidFold: 0.515 RNAsubopt: 0.344 Positive Predictive Value CentroidFold: 0.633 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs TurboFold(20) Matthews Correlation Coefficient CentroidFold: 0.571 TurboFold(20): 0.419 Sensitivity CentroidFold: 0.515 TurboFold(20): 0.210 Positive Predictive Value CentroidFold: 0.633 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs PPfold(20) Matthews Correlation Coefficient CentroidFold: 0.571 PPfold(20): 0.416 Sensitivity CentroidFold: 0.515 PPfold(20): 0.197 Positive Predictive Value CentroidFold: 0.633 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Afold Matthews Correlation Coefficient CentroidFold: 0.571 Afold: 0.408 Sensitivity CentroidFold: 0.515 Afold: 0.343 Positive Predictive Value CentroidFold: 0.633 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Carnac(20) Matthews Correlation Coefficient CentroidFold: 0.571 Carnac(20): 0.401 Sensitivity CentroidFold: 0.515 Carnac(20): 0.180 Positive Predictive Value CentroidFold: 0.633 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs McQFold Matthews Correlation Coefficient CentroidFold: 0.571 McQFold: 0.389 Sensitivity CentroidFold: 0.515 McQFold: 0.308 Positive Predictive Value CentroidFold: 0.633 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RSpredict(20) Matthews Correlation Coefficient CentroidFold: 0.571 RSpredict(20): 0.377 Sensitivity CentroidFold: 0.515 RSpredict(20): 0.241 Positive Predictive Value CentroidFold: 0.633 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RNAshapes Matthews Correlation Coefficient CentroidFold: 0.571 RNAshapes: 0.367 Sensitivity CentroidFold: 0.515 RNAshapes: 0.285 Positive Predictive Value CentroidFold: 0.633 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RNASLOpt Matthews Correlation Coefficient CentroidFold: 0.571 RNASLOpt: 0.364 Sensitivity CentroidFold: 0.515 RNASLOpt: 0.261 Positive Predictive Value CentroidFold: 0.633 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Multilign(20) Matthews Correlation Coefficient CentroidFold: 0.571 Multilign(20): 0.350 Sensitivity CentroidFold: 0.515 Multilign(20): 0.161 Positive Predictive Value CentroidFold: 0.633 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Murlet(20) Matthews Correlation Coefficient CentroidFold: 0.571 Murlet(20): 0.321 Sensitivity CentroidFold: 0.515 Murlet(20): 0.131 Positive Predictive Value CentroidFold: 0.633 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RNAwolf Matthews Correlation Coefficient CentroidFold: 0.571 RNAwolf: 0.310 Sensitivity CentroidFold: 0.515 RNAwolf: 0.261 Positive Predictive Value CentroidFold: 0.633 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RSpredict(seed) Matthews Correlation Coefficient CentroidFold: 0.571 RSpredict(seed): 0.295 Sensitivity CentroidFold: 0.515 RSpredict(seed): 0.146 Positive Predictive Value CentroidFold: 0.633 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs CMfinder(20) Matthews Correlation Coefficient CentroidFold: 0.571 CMfinder(20): 0.292 Sensitivity CentroidFold: 0.515 CMfinder(20): 0.107 Positive Predictive Value CentroidFold: 0.633 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Vsfold4 Matthews Correlation Coefficient CentroidFold: 0.571 Vsfold4: 0.270 Sensitivity CentroidFold: 0.515 Vsfold4: 0.198 Positive Predictive Value CentroidFold: 0.633 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Vsfold5 Matthews Correlation Coefficient CentroidFold: 0.571 Vsfold5: 0.260 Sensitivity CentroidFold: 0.515 Vsfold5: 0.195 Positive Predictive Value CentroidFold: 0.633 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RNASampler(20) Matthews Correlation Coefficient CentroidFold: 0.571 RNASampler(20): 0.246 Sensitivity CentroidFold: 0.515 RNASampler(20): 0.069 Positive Predictive Value CentroidFold: 0.633 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs HotKnots Matthews Correlation Coefficient CentroidFold: 0.571 HotKnots: 0.212 Sensitivity CentroidFold: 0.515 HotKnots: 0.069 Positive Predictive Value CentroidFold: 0.633 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Mastr(20) Matthews Correlation Coefficient CentroidFold: 0.571 Mastr(20): 0.187 Sensitivity CentroidFold: 0.515 Mastr(20): 0.044 Positive Predictive Value CentroidFold: 0.633 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Cylofold Matthews Correlation Coefficient CentroidFold: 0.571 Cylofold: 0.178 Sensitivity CentroidFold: 0.515 Cylofold: 0.053 Positive Predictive Value CentroidFold: 0.633 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Pknots Matthews Correlation Coefficient CentroidFold: 0.571 Pknots: 0.165 Sensitivity CentroidFold: 0.515 Pknots: 0.041 Positive Predictive Value CentroidFold: 0.633 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Alterna Matthews Correlation Coefficient CentroidFold: 0.571 Alterna: 0.145 Sensitivity CentroidFold: 0.515 Alterna: 0.036 Positive Predictive Value CentroidFold: 0.633 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs MCFold Matthews Correlation Coefficient CentroidFold: 0.571 MCFold: 0.138 Sensitivity CentroidFold: 0.515 MCFold: 0.044 Positive Predictive Value CentroidFold: 0.633 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RDfolder Matthews Correlation Coefficient CentroidFold: 0.571 RDfolder: 0.138 Sensitivity CentroidFold: 0.515 RDfolder: 0.031 Positive Predictive Value CentroidFold: 0.633 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Murlet(seed) Matthews Correlation Coefficient CentroidFold: 0.571 Murlet(seed): 0.110 Sensitivity CentroidFold: 0.515 Murlet(seed): 0.015 Positive Predictive Value CentroidFold: 0.633 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs CMfinder(seed) Matthews Correlation Coefficient CentroidFold: 0.571 CMfinder(seed): 0.111 Sensitivity CentroidFold: 0.515 CMfinder(seed): 0.016 Positive Predictive Value CentroidFold: 0.633 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs TurboFold(seed) Matthews Correlation Coefficient CentroidFold: 0.571 TurboFold(seed): 0.106 Sensitivity CentroidFold: 0.515 TurboFold(seed): 0.014 Positive Predictive Value CentroidFold: 0.633 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs PPfold(seed) Matthews Correlation Coefficient CentroidFold: 0.571 PPfold(seed): 0.097 Sensitivity CentroidFold: 0.515 PPfold(seed): 0.012 Positive Predictive Value CentroidFold: 0.633 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Carnac(seed) Matthews Correlation Coefficient CentroidFold: 0.571 Carnac(seed): 0.093 Sensitivity CentroidFold: 0.515 Carnac(seed): 0.010 Positive Predictive Value CentroidFold: 0.633 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs RNASampler(seed) Matthews Correlation Coefficient CentroidFold: 0.571 RNASampler(seed): 0.088 Sensitivity CentroidFold: 0.515 RNASampler(seed): 0.009 Positive Predictive Value CentroidFold: 0.633 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Mastr(seed) Matthews Correlation Coefficient CentroidFold: 0.571 Mastr(seed): 0.072 Sensitivity CentroidFold: 0.515 Mastr(seed): 0.006 Positive Predictive Value CentroidFold: 0.633 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs NanoFolder Matthews Correlation Coefficient CentroidFold: 0.571 NanoFolder: 0.068 Sensitivity CentroidFold: 0.515 NanoFolder: 0.027 Positive Predictive Value CentroidFold: 0.633 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidFold vs Multilign(seed) Matthews Correlation Coefficient CentroidFold: 0.571 Multilign(seed): 0.059 Sensitivity CentroidFold: 0.515 Multilign(seed): 0.005 Positive Predictive Value CentroidFold: 0.633 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
CentroidAlifold(20)	1242 ContextFold vs CentroidAlifold(20) Matthews Correlation Coefficient ContextFold: 0.754 CentroidAlifold(20): 0.573 Sensitivity ContextFold: 0.717 CentroidAlifold(20): 0.369 Positive Predictive Value ContextFold: 0.794 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs CentroidAlifold(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 CentroidAlifold(20): 0.573 Sensitivity PETfold_pre2.0(seed): 0.667 CentroidAlifold(20): 0.369 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs CentroidAlifold(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 CentroidAlifold(20): 0.573 Sensitivity CentroidAlifold(seed): 0.414 CentroidAlifold(20): 0.369 Positive Predictive Value CentroidAlifold(seed): 0.901 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs CentroidAlifold(20) Matthews Correlation Coefficient IPknot: 0.607 CentroidAlifold(20): 0.573 Sensitivity IPknot: 0.551 CentroidAlifold(20): 0.369 Positive Predictive Value IPknot: 0.670 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs CentroidAlifold(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 CentroidAlifold(20): 0.573 Sensitivity PETfold_pre2.0(20): 0.410 CentroidAlifold(20): 0.369 Positive Predictive Value PETfold_pre2.0(20): 0.807 CentroidAlifold(20): 0.891 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs CentroidFold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 CentroidFold: 0.571 Sensitivity CentroidAlifold(20): 0.369 CentroidFold: 0.515 Positive Predictive Value CentroidAlifold(20): 0.891 CentroidFold: 0.633 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 0.0167317061725		+ CentroidAlifold(20) vs CentroidHomfold‑LAST Matthews Correlation Coefficient CentroidAlifold(20): 0.573 CentroidHomfold‑LAST: 0.560 Sensitivity CentroidAlifold(20): 0.369 CentroidHomfold‑LAST: 0.359 Positive Predictive Value CentroidAlifold(20): 0.891 CentroidHomfold‑LAST: 0.874 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 4.83792096436e-08	+ CentroidAlifold(20) vs Contrafold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Contrafold: 0.556 Sensitivity CentroidAlifold(20): 0.369 Contrafold: 0.542 Positive Predictive Value CentroidAlifold(20): 0.891 Contrafold: 0.571 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs MXScarna(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 MXScarna(seed): 0.536 Sensitivity CentroidAlifold(20): 0.369 MXScarna(seed): 0.382 Positive Predictive Value CentroidAlifold(20): 0.891 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RNAalifold(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RNAalifold(20): 0.532 Sensitivity CentroidAlifold(20): 0.369 RNAalifold(20): 0.359 Positive Predictive Value CentroidAlifold(20): 0.891 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Sfold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Sfold: 0.527 Sensitivity CentroidAlifold(20): 0.369 Sfold: 0.477 Positive Predictive Value CentroidAlifold(20): 0.891 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RNAalifold(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RNAalifold(seed): 0.523 Sensitivity CentroidAlifold(20): 0.369 RNAalifold(seed): 0.328 Positive Predictive Value CentroidAlifold(20): 0.891 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs MaxExpect Matthews Correlation Coefficient CentroidAlifold(20): 0.573 MaxExpect: 0.516 Sensitivity CentroidAlifold(20): 0.369 MaxExpect: 0.505 Positive Predictive Value CentroidAlifold(20): 0.891 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs ProbKnot Matthews Correlation Coefficient CentroidAlifold(20): 0.573 ProbKnot: 0.512 Sensitivity CentroidAlifold(20): 0.369 ProbKnot: 0.508 Positive Predictive Value CentroidAlifold(20): 0.891 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs MXScarna(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 MXScarna(20): 0.500 Sensitivity CentroidAlifold(20): 0.369 MXScarna(20): 0.353 Positive Predictive Value CentroidAlifold(20): 0.891 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs UNAFold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 UNAFold: 0.494 Sensitivity CentroidAlifold(20): 0.369 UNAFold: 0.491 Positive Predictive Value CentroidAlifold(20): 0.891 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Fold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Fold: 0.493 Sensitivity CentroidAlifold(20): 0.369 Fold: 0.496 Positive Predictive Value CentroidAlifold(20): 0.891 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RNAfold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RNAfold: 0.485 Sensitivity CentroidAlifold(20): 0.369 RNAfold: 0.486 Positive Predictive Value CentroidAlifold(20): 0.891 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs PknotsRG Matthews Correlation Coefficient CentroidAlifold(20): 0.573 PknotsRG: 0.474 Sensitivity CentroidAlifold(20): 0.369 PknotsRG: 0.440 Positive Predictive Value CentroidAlifold(20): 0.891 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs CRWrnafold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 CRWrnafold: 0.430 Sensitivity CentroidAlifold(20): 0.369 CRWrnafold: 0.379 Positive Predictive Value CentroidAlifold(20): 0.891 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RNAsubopt Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RNAsubopt: 0.422 Sensitivity CentroidAlifold(20): 0.369 RNAsubopt: 0.344 Positive Predictive Value CentroidAlifold(20): 0.891 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs TurboFold(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 TurboFold(20): 0.419 Sensitivity CentroidAlifold(20): 0.369 TurboFold(20): 0.210 Positive Predictive Value CentroidAlifold(20): 0.891 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs PPfold(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 PPfold(20): 0.416 Sensitivity CentroidAlifold(20): 0.369 PPfold(20): 0.197 Positive Predictive Value CentroidAlifold(20): 0.891 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Afold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Afold: 0.408 Sensitivity CentroidAlifold(20): 0.369 Afold: 0.343 Positive Predictive Value CentroidAlifold(20): 0.891 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Carnac(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Carnac(20): 0.401 Sensitivity CentroidAlifold(20): 0.369 Carnac(20): 0.180 Positive Predictive Value CentroidAlifold(20): 0.891 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs McQFold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 McQFold: 0.389 Sensitivity CentroidAlifold(20): 0.369 McQFold: 0.308 Positive Predictive Value CentroidAlifold(20): 0.891 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RSpredict(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RSpredict(20): 0.377 Sensitivity CentroidAlifold(20): 0.369 RSpredict(20): 0.241 Positive Predictive Value CentroidAlifold(20): 0.891 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RNAshapes Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RNAshapes: 0.367 Sensitivity CentroidAlifold(20): 0.369 RNAshapes: 0.285 Positive Predictive Value CentroidAlifold(20): 0.891 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RNASLOpt Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RNASLOpt: 0.364 Sensitivity CentroidAlifold(20): 0.369 RNASLOpt: 0.261 Positive Predictive Value CentroidAlifold(20): 0.891 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Multilign(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Multilign(20): 0.350 Sensitivity CentroidAlifold(20): 0.369 Multilign(20): 0.161 Positive Predictive Value CentroidAlifold(20): 0.891 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Murlet(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Murlet(20): 0.321 Sensitivity CentroidAlifold(20): 0.369 Murlet(20): 0.131 Positive Predictive Value CentroidAlifold(20): 0.891 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RNAwolf Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RNAwolf: 0.310 Sensitivity CentroidAlifold(20): 0.369 RNAwolf: 0.261 Positive Predictive Value CentroidAlifold(20): 0.891 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RSpredict(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RSpredict(seed): 0.295 Sensitivity CentroidAlifold(20): 0.369 RSpredict(seed): 0.146 Positive Predictive Value CentroidAlifold(20): 0.891 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs CMfinder(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 CMfinder(20): 0.292 Sensitivity CentroidAlifold(20): 0.369 CMfinder(20): 0.107 Positive Predictive Value CentroidAlifold(20): 0.891 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Vsfold4 Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Vsfold4: 0.270 Sensitivity CentroidAlifold(20): 0.369 Vsfold4: 0.198 Positive Predictive Value CentroidAlifold(20): 0.891 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Vsfold5 Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Vsfold5: 0.260 Sensitivity CentroidAlifold(20): 0.369 Vsfold5: 0.195 Positive Predictive Value CentroidAlifold(20): 0.891 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RNASampler(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RNASampler(20): 0.246 Sensitivity CentroidAlifold(20): 0.369 RNASampler(20): 0.069 Positive Predictive Value CentroidAlifold(20): 0.891 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs HotKnots Matthews Correlation Coefficient CentroidAlifold(20): 0.573 HotKnots: 0.212 Sensitivity CentroidAlifold(20): 0.369 HotKnots: 0.069 Positive Predictive Value CentroidAlifold(20): 0.891 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Mastr(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Mastr(20): 0.187 Sensitivity CentroidAlifold(20): 0.369 Mastr(20): 0.044 Positive Predictive Value CentroidAlifold(20): 0.891 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Cylofold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Cylofold: 0.178 Sensitivity CentroidAlifold(20): 0.369 Cylofold: 0.053 Positive Predictive Value CentroidAlifold(20): 0.891 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Pknots Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Pknots: 0.165 Sensitivity CentroidAlifold(20): 0.369 Pknots: 0.041 Positive Predictive Value CentroidAlifold(20): 0.891 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Alterna Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Alterna: 0.145 Sensitivity CentroidAlifold(20): 0.369 Alterna: 0.036 Positive Predictive Value CentroidAlifold(20): 0.891 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs MCFold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 MCFold: 0.138 Sensitivity CentroidAlifold(20): 0.369 MCFold: 0.044 Positive Predictive Value CentroidAlifold(20): 0.891 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RDfolder Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RDfolder: 0.138 Sensitivity CentroidAlifold(20): 0.369 RDfolder: 0.031 Positive Predictive Value CentroidAlifold(20): 0.891 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Murlet(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Murlet(seed): 0.110 Sensitivity CentroidAlifold(20): 0.369 Murlet(seed): 0.015 Positive Predictive Value CentroidAlifold(20): 0.891 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs CMfinder(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 CMfinder(seed): 0.111 Sensitivity CentroidAlifold(20): 0.369 CMfinder(seed): 0.016 Positive Predictive Value CentroidAlifold(20): 0.891 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs TurboFold(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 TurboFold(seed): 0.106 Sensitivity CentroidAlifold(20): 0.369 TurboFold(seed): 0.014 Positive Predictive Value CentroidAlifold(20): 0.891 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs PPfold(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 PPfold(seed): 0.097 Sensitivity CentroidAlifold(20): 0.369 PPfold(seed): 0.012 Positive Predictive Value CentroidAlifold(20): 0.891 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Carnac(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Carnac(seed): 0.093 Sensitivity CentroidAlifold(20): 0.369 Carnac(seed): 0.010 Positive Predictive Value CentroidAlifold(20): 0.891 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs RNASampler(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RNASampler(seed): 0.088 Sensitivity CentroidAlifold(20): 0.369 RNASampler(seed): 0.009 Positive Predictive Value CentroidAlifold(20): 0.891 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Mastr(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Mastr(seed): 0.072 Sensitivity CentroidAlifold(20): 0.369 Mastr(seed): 0.006 Positive Predictive Value CentroidAlifold(20): 0.891 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs NanoFolder Matthews Correlation Coefficient CentroidAlifold(20): 0.573 NanoFolder: 0.068 Sensitivity CentroidAlifold(20): 0.369 NanoFolder: 0.027 Positive Predictive Value CentroidAlifold(20): 0.891 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidAlifold(20) vs Multilign(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Multilign(seed): 0.059 Sensitivity CentroidAlifold(20): 0.369 Multilign(seed): 0.005 Positive Predictive Value CentroidAlifold(20): 0.891 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
CentroidHomfold‑LAST	1242 ContextFold vs CentroidHomfold‑LAST Matthews Correlation Coefficient ContextFold: 0.754 CentroidHomfold‑LAST: 0.560 Sensitivity ContextFold: 0.717 CentroidHomfold‑LAST: 0.359 Positive Predictive Value ContextFold: 0.794 CentroidHomfold‑LAST: 0.874 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs CentroidHomfold‑LAST Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 CentroidHomfold‑LAST: 0.560 Sensitivity PETfold_pre2.0(seed): 0.667 CentroidHomfold‑LAST: 0.359 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CentroidHomfold‑LAST: 0.874 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs CentroidHomfold‑LAST Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 CentroidHomfold‑LAST: 0.560 Sensitivity CentroidAlifold(seed): 0.414 CentroidHomfold‑LAST: 0.359 Positive Predictive Value CentroidAlifold(seed): 0.901 CentroidHomfold‑LAST: 0.874 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs CentroidHomfold‑LAST Matthews Correlation Coefficient IPknot: 0.607 CentroidHomfold‑LAST: 0.560 Sensitivity IPknot: 0.551 CentroidHomfold‑LAST: 0.359 Positive Predictive Value IPknot: 0.670 CentroidHomfold‑LAST: 0.874 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs CentroidHomfold‑LAST Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 CentroidHomfold‑LAST: 0.560 Sensitivity PETfold_pre2.0(20): 0.410 CentroidHomfold‑LAST: 0.359 Positive Predictive Value PETfold_pre2.0(20): 0.807 CentroidHomfold‑LAST: 0.874 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs CentroidHomfold‑LAST Matthews Correlation Coefficient CentroidFold: 0.571 CentroidHomfold‑LAST: 0.560 Sensitivity CentroidFold: 0.515 CentroidHomfold‑LAST: 0.359 Positive Predictive Value CentroidFold: 0.633 CentroidHomfold‑LAST: 0.874 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs CentroidHomfold‑LAST Matthews Correlation Coefficient CentroidAlifold(20): 0.573 CentroidHomfold‑LAST: 0.560 Sensitivity CentroidAlifold(20): 0.369 CentroidHomfold‑LAST: 0.359 Positive Predictive Value CentroidAlifold(20): 0.891 CentroidHomfold‑LAST: 0.874 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 4.83792096436e-08		+ CentroidHomfold‑LAST vs Contrafold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Contrafold: 0.556 Sensitivity CentroidHomfold‑LAST: 0.359 Contrafold: 0.542 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Contrafold: 0.571 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 9.94962292175e-07	+ CentroidHomfold‑LAST vs MXScarna(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 MXScarna(seed): 0.536 Sensitivity CentroidHomfold‑LAST: 0.359 MXScarna(seed): 0.382 Positive Predictive Value CentroidHomfold‑LAST: 0.874 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RNAalifold(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RNAalifold(20): 0.532 Sensitivity CentroidHomfold‑LAST: 0.359 RNAalifold(20): 0.359 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Sfold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Sfold: 0.527 Sensitivity CentroidHomfold‑LAST: 0.359 Sfold: 0.477 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RNAalifold(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RNAalifold(seed): 0.523 Sensitivity CentroidHomfold‑LAST: 0.359 RNAalifold(seed): 0.328 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs MaxExpect Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 MaxExpect: 0.516 Sensitivity CentroidHomfold‑LAST: 0.359 MaxExpect: 0.505 Positive Predictive Value CentroidHomfold‑LAST: 0.874 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs ProbKnot Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 ProbKnot: 0.512 Sensitivity CentroidHomfold‑LAST: 0.359 ProbKnot: 0.508 Positive Predictive Value CentroidHomfold‑LAST: 0.874 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs MXScarna(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 MXScarna(20): 0.500 Sensitivity CentroidHomfold‑LAST: 0.359 MXScarna(20): 0.353 Positive Predictive Value CentroidHomfold‑LAST: 0.874 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs UNAFold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 UNAFold: 0.494 Sensitivity CentroidHomfold‑LAST: 0.359 UNAFold: 0.491 Positive Predictive Value CentroidHomfold‑LAST: 0.874 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Fold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Fold: 0.493 Sensitivity CentroidHomfold‑LAST: 0.359 Fold: 0.496 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RNAfold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RNAfold: 0.485 Sensitivity CentroidHomfold‑LAST: 0.359 RNAfold: 0.486 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs PknotsRG Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 PknotsRG: 0.474 Sensitivity CentroidHomfold‑LAST: 0.359 PknotsRG: 0.440 Positive Predictive Value CentroidHomfold‑LAST: 0.874 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs CRWrnafold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 CRWrnafold: 0.430 Sensitivity CentroidHomfold‑LAST: 0.359 CRWrnafold: 0.379 Positive Predictive Value CentroidHomfold‑LAST: 0.874 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RNAsubopt Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RNAsubopt: 0.422 Sensitivity CentroidHomfold‑LAST: 0.359 RNAsubopt: 0.344 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs TurboFold(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 TurboFold(20): 0.419 Sensitivity CentroidHomfold‑LAST: 0.359 TurboFold(20): 0.210 Positive Predictive Value CentroidHomfold‑LAST: 0.874 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs PPfold(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 PPfold(20): 0.416 Sensitivity CentroidHomfold‑LAST: 0.359 PPfold(20): 0.197 Positive Predictive Value CentroidHomfold‑LAST: 0.874 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Afold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Afold: 0.408 Sensitivity CentroidHomfold‑LAST: 0.359 Afold: 0.343 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Carnac(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Carnac(20): 0.401 Sensitivity CentroidHomfold‑LAST: 0.359 Carnac(20): 0.180 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs McQFold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 McQFold: 0.389 Sensitivity CentroidHomfold‑LAST: 0.359 McQFold: 0.308 Positive Predictive Value CentroidHomfold‑LAST: 0.874 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RSpredict(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RSpredict(20): 0.377 Sensitivity CentroidHomfold‑LAST: 0.359 RSpredict(20): 0.241 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RNAshapes Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RNAshapes: 0.367 Sensitivity CentroidHomfold‑LAST: 0.359 RNAshapes: 0.285 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RNASLOpt Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RNASLOpt: 0.364 Sensitivity CentroidHomfold‑LAST: 0.359 RNASLOpt: 0.261 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Multilign(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Multilign(20): 0.350 Sensitivity CentroidHomfold‑LAST: 0.359 Multilign(20): 0.161 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Murlet(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Murlet(20): 0.321 Sensitivity CentroidHomfold‑LAST: 0.359 Murlet(20): 0.131 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RNAwolf Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RNAwolf: 0.310 Sensitivity CentroidHomfold‑LAST: 0.359 RNAwolf: 0.261 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RSpredict(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RSpredict(seed): 0.295 Sensitivity CentroidHomfold‑LAST: 0.359 RSpredict(seed): 0.146 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs CMfinder(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 CMfinder(20): 0.292 Sensitivity CentroidHomfold‑LAST: 0.359 CMfinder(20): 0.107 Positive Predictive Value CentroidHomfold‑LAST: 0.874 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Vsfold4 Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Vsfold4: 0.270 Sensitivity CentroidHomfold‑LAST: 0.359 Vsfold4: 0.198 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Vsfold5 Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Vsfold5: 0.260 Sensitivity CentroidHomfold‑LAST: 0.359 Vsfold5: 0.195 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RNASampler(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RNASampler(20): 0.246 Sensitivity CentroidHomfold‑LAST: 0.359 RNASampler(20): 0.069 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs HotKnots Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 HotKnots: 0.212 Sensitivity CentroidHomfold‑LAST: 0.359 HotKnots: 0.069 Positive Predictive Value CentroidHomfold‑LAST: 0.874 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Mastr(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Mastr(20): 0.187 Sensitivity CentroidHomfold‑LAST: 0.359 Mastr(20): 0.044 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Cylofold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Cylofold: 0.178 Sensitivity CentroidHomfold‑LAST: 0.359 Cylofold: 0.053 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Pknots Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Pknots: 0.165 Sensitivity CentroidHomfold‑LAST: 0.359 Pknots: 0.041 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Alterna Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Alterna: 0.145 Sensitivity CentroidHomfold‑LAST: 0.359 Alterna: 0.036 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs MCFold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 MCFold: 0.138 Sensitivity CentroidHomfold‑LAST: 0.359 MCFold: 0.044 Positive Predictive Value CentroidHomfold‑LAST: 0.874 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RDfolder Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RDfolder: 0.138 Sensitivity CentroidHomfold‑LAST: 0.359 RDfolder: 0.031 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Murlet(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Murlet(seed): 0.110 Sensitivity CentroidHomfold‑LAST: 0.359 Murlet(seed): 0.015 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs CMfinder(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 CMfinder(seed): 0.111 Sensitivity CentroidHomfold‑LAST: 0.359 CMfinder(seed): 0.016 Positive Predictive Value CentroidHomfold‑LAST: 0.874 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs TurboFold(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 TurboFold(seed): 0.106 Sensitivity CentroidHomfold‑LAST: 0.359 TurboFold(seed): 0.014 Positive Predictive Value CentroidHomfold‑LAST: 0.874 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs PPfold(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 PPfold(seed): 0.097 Sensitivity CentroidHomfold‑LAST: 0.359 PPfold(seed): 0.012 Positive Predictive Value CentroidHomfold‑LAST: 0.874 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Carnac(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Carnac(seed): 0.093 Sensitivity CentroidHomfold‑LAST: 0.359 Carnac(seed): 0.010 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs RNASampler(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RNASampler(seed): 0.088 Sensitivity CentroidHomfold‑LAST: 0.359 RNASampler(seed): 0.009 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Mastr(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Mastr(seed): 0.072 Sensitivity CentroidHomfold‑LAST: 0.359 Mastr(seed): 0.006 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs NanoFolder Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 NanoFolder: 0.068 Sensitivity CentroidHomfold‑LAST: 0.359 NanoFolder: 0.027 Positive Predictive Value CentroidHomfold‑LAST: 0.874 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CentroidHomfold‑LAST vs Multilign(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Multilign(seed): 0.059 Sensitivity CentroidHomfold‑LAST: 0.359 Multilign(seed): 0.005 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
Contrafold	1242 ContextFold vs Contrafold Matthews Correlation Coefficient ContextFold: 0.754 Contrafold: 0.556 Sensitivity ContextFold: 0.717 Contrafold: 0.542 Positive Predictive Value ContextFold: 0.794 Contrafold: 0.571 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs Contrafold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Contrafold: 0.556 Sensitivity PETfold_pre2.0(seed): 0.667 Contrafold: 0.542 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Contrafold: 0.571 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs Contrafold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Contrafold: 0.556 Sensitivity CentroidAlifold(seed): 0.414 Contrafold: 0.542 Positive Predictive Value CentroidAlifold(seed): 0.901 Contrafold: 0.571 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs Contrafold Matthews Correlation Coefficient IPknot: 0.607 Contrafold: 0.556 Sensitivity IPknot: 0.551 Contrafold: 0.542 Positive Predictive Value IPknot: 0.670 Contrafold: 0.571 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs Contrafold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Contrafold: 0.556 Sensitivity PETfold_pre2.0(20): 0.410 Contrafold: 0.542 Positive Predictive Value PETfold_pre2.0(20): 0.807 Contrafold: 0.571 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs Contrafold Matthews Correlation Coefficient CentroidFold: 0.571 Contrafold: 0.556 Sensitivity CentroidFold: 0.515 Contrafold: 0.542 Positive Predictive Value CentroidFold: 0.633 Contrafold: 0.571 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs Contrafold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Contrafold: 0.556 Sensitivity CentroidAlifold(20): 0.369 Contrafold: 0.542 Positive Predictive Value CentroidAlifold(20): 0.891 Contrafold: 0.571 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs Contrafold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Contrafold: 0.556 Sensitivity CentroidHomfold‑LAST: 0.359 Contrafold: 0.542 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Contrafold: 0.571 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 9.94962292175e-07		+ Contrafold vs MXScarna(seed) Matthews Correlation Coefficient Contrafold: 0.556 MXScarna(seed): 0.536 Sensitivity Contrafold: 0.542 MXScarna(seed): 0.382 Positive Predictive Value Contrafold: 0.571 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RNAalifold(20) Matthews Correlation Coefficient Contrafold: 0.556 RNAalifold(20): 0.532 Sensitivity Contrafold: 0.542 RNAalifold(20): 0.359 Positive Predictive Value Contrafold: 0.571 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Sfold Matthews Correlation Coefficient Contrafold: 0.556 Sfold: 0.527 Sensitivity Contrafold: 0.542 Sfold: 0.477 Positive Predictive Value Contrafold: 0.571 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RNAalifold(seed) Matthews Correlation Coefficient Contrafold: 0.556 RNAalifold(seed): 0.523 Sensitivity Contrafold: 0.542 RNAalifold(seed): 0.328 Positive Predictive Value Contrafold: 0.571 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs MaxExpect Matthews Correlation Coefficient Contrafold: 0.556 MaxExpect: 0.516 Sensitivity Contrafold: 0.542 MaxExpect: 0.505 Positive Predictive Value Contrafold: 0.571 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs ProbKnot Matthews Correlation Coefficient Contrafold: 0.556 ProbKnot: 0.512 Sensitivity Contrafold: 0.542 ProbKnot: 0.508 Positive Predictive Value Contrafold: 0.571 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs MXScarna(20) Matthews Correlation Coefficient Contrafold: 0.556 MXScarna(20): 0.500 Sensitivity Contrafold: 0.542 MXScarna(20): 0.353 Positive Predictive Value Contrafold: 0.571 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs UNAFold Matthews Correlation Coefficient Contrafold: 0.556 UNAFold: 0.494 Sensitivity Contrafold: 0.542 UNAFold: 0.491 Positive Predictive Value Contrafold: 0.571 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Fold Matthews Correlation Coefficient Contrafold: 0.556 Fold: 0.493 Sensitivity Contrafold: 0.542 Fold: 0.496 Positive Predictive Value Contrafold: 0.571 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RNAfold Matthews Correlation Coefficient Contrafold: 0.556 RNAfold: 0.485 Sensitivity Contrafold: 0.542 RNAfold: 0.486 Positive Predictive Value Contrafold: 0.571 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs PknotsRG Matthews Correlation Coefficient Contrafold: 0.556 PknotsRG: 0.474 Sensitivity Contrafold: 0.542 PknotsRG: 0.440 Positive Predictive Value Contrafold: 0.571 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs CRWrnafold Matthews Correlation Coefficient Contrafold: 0.556 CRWrnafold: 0.430 Sensitivity Contrafold: 0.542 CRWrnafold: 0.379 Positive Predictive Value Contrafold: 0.571 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RNAsubopt Matthews Correlation Coefficient Contrafold: 0.556 RNAsubopt: 0.422 Sensitivity Contrafold: 0.542 RNAsubopt: 0.344 Positive Predictive Value Contrafold: 0.571 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs TurboFold(20) Matthews Correlation Coefficient Contrafold: 0.556 TurboFold(20): 0.419 Sensitivity Contrafold: 0.542 TurboFold(20): 0.210 Positive Predictive Value Contrafold: 0.571 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs PPfold(20) Matthews Correlation Coefficient Contrafold: 0.556 PPfold(20): 0.416 Sensitivity Contrafold: 0.542 PPfold(20): 0.197 Positive Predictive Value Contrafold: 0.571 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Afold Matthews Correlation Coefficient Contrafold: 0.556 Afold: 0.408 Sensitivity Contrafold: 0.542 Afold: 0.343 Positive Predictive Value Contrafold: 0.571 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Carnac(20) Matthews Correlation Coefficient Contrafold: 0.556 Carnac(20): 0.401 Sensitivity Contrafold: 0.542 Carnac(20): 0.180 Positive Predictive Value Contrafold: 0.571 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs McQFold Matthews Correlation Coefficient Contrafold: 0.556 McQFold: 0.389 Sensitivity Contrafold: 0.542 McQFold: 0.308 Positive Predictive Value Contrafold: 0.571 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RSpredict(20) Matthews Correlation Coefficient Contrafold: 0.556 RSpredict(20): 0.377 Sensitivity Contrafold: 0.542 RSpredict(20): 0.241 Positive Predictive Value Contrafold: 0.571 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RNAshapes Matthews Correlation Coefficient Contrafold: 0.556 RNAshapes: 0.367 Sensitivity Contrafold: 0.542 RNAshapes: 0.285 Positive Predictive Value Contrafold: 0.571 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RNASLOpt Matthews Correlation Coefficient Contrafold: 0.556 RNASLOpt: 0.364 Sensitivity Contrafold: 0.542 RNASLOpt: 0.261 Positive Predictive Value Contrafold: 0.571 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Multilign(20) Matthews Correlation Coefficient Contrafold: 0.556 Multilign(20): 0.350 Sensitivity Contrafold: 0.542 Multilign(20): 0.161 Positive Predictive Value Contrafold: 0.571 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Murlet(20) Matthews Correlation Coefficient Contrafold: 0.556 Murlet(20): 0.321 Sensitivity Contrafold: 0.542 Murlet(20): 0.131 Positive Predictive Value Contrafold: 0.571 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RNAwolf Matthews Correlation Coefficient Contrafold: 0.556 RNAwolf: 0.310 Sensitivity Contrafold: 0.542 RNAwolf: 0.261 Positive Predictive Value Contrafold: 0.571 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RSpredict(seed) Matthews Correlation Coefficient Contrafold: 0.556 RSpredict(seed): 0.295 Sensitivity Contrafold: 0.542 RSpredict(seed): 0.146 Positive Predictive Value Contrafold: 0.571 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs CMfinder(20) Matthews Correlation Coefficient Contrafold: 0.556 CMfinder(20): 0.292 Sensitivity Contrafold: 0.542 CMfinder(20): 0.107 Positive Predictive Value Contrafold: 0.571 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Vsfold4 Matthews Correlation Coefficient Contrafold: 0.556 Vsfold4: 0.270 Sensitivity Contrafold: 0.542 Vsfold4: 0.198 Positive Predictive Value Contrafold: 0.571 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Vsfold5 Matthews Correlation Coefficient Contrafold: 0.556 Vsfold5: 0.260 Sensitivity Contrafold: 0.542 Vsfold5: 0.195 Positive Predictive Value Contrafold: 0.571 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RNASampler(20) Matthews Correlation Coefficient Contrafold: 0.556 RNASampler(20): 0.246 Sensitivity Contrafold: 0.542 RNASampler(20): 0.069 Positive Predictive Value Contrafold: 0.571 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs HotKnots Matthews Correlation Coefficient Contrafold: 0.556 HotKnots: 0.212 Sensitivity Contrafold: 0.542 HotKnots: 0.069 Positive Predictive Value Contrafold: 0.571 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Mastr(20) Matthews Correlation Coefficient Contrafold: 0.556 Mastr(20): 0.187 Sensitivity Contrafold: 0.542 Mastr(20): 0.044 Positive Predictive Value Contrafold: 0.571 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Cylofold Matthews Correlation Coefficient Contrafold: 0.556 Cylofold: 0.178 Sensitivity Contrafold: 0.542 Cylofold: 0.053 Positive Predictive Value Contrafold: 0.571 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Pknots Matthews Correlation Coefficient Contrafold: 0.556 Pknots: 0.165 Sensitivity Contrafold: 0.542 Pknots: 0.041 Positive Predictive Value Contrafold: 0.571 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Alterna Matthews Correlation Coefficient Contrafold: 0.556 Alterna: 0.145 Sensitivity Contrafold: 0.542 Alterna: 0.036 Positive Predictive Value Contrafold: 0.571 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs MCFold Matthews Correlation Coefficient Contrafold: 0.556 MCFold: 0.138 Sensitivity Contrafold: 0.542 MCFold: 0.044 Positive Predictive Value Contrafold: 0.571 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RDfolder Matthews Correlation Coefficient Contrafold: 0.556 RDfolder: 0.138 Sensitivity Contrafold: 0.542 RDfolder: 0.031 Positive Predictive Value Contrafold: 0.571 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Murlet(seed) Matthews Correlation Coefficient Contrafold: 0.556 Murlet(seed): 0.110 Sensitivity Contrafold: 0.542 Murlet(seed): 0.015 Positive Predictive Value Contrafold: 0.571 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs CMfinder(seed) Matthews Correlation Coefficient Contrafold: 0.556 CMfinder(seed): 0.111 Sensitivity Contrafold: 0.542 CMfinder(seed): 0.016 Positive Predictive Value Contrafold: 0.571 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs TurboFold(seed) Matthews Correlation Coefficient Contrafold: 0.556 TurboFold(seed): 0.106 Sensitivity Contrafold: 0.542 TurboFold(seed): 0.014 Positive Predictive Value Contrafold: 0.571 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs PPfold(seed) Matthews Correlation Coefficient Contrafold: 0.556 PPfold(seed): 0.097 Sensitivity Contrafold: 0.542 PPfold(seed): 0.012 Positive Predictive Value Contrafold: 0.571 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Carnac(seed) Matthews Correlation Coefficient Contrafold: 0.556 Carnac(seed): 0.093 Sensitivity Contrafold: 0.542 Carnac(seed): 0.010 Positive Predictive Value Contrafold: 0.571 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs RNASampler(seed) Matthews Correlation Coefficient Contrafold: 0.556 RNASampler(seed): 0.088 Sensitivity Contrafold: 0.542 RNASampler(seed): 0.009 Positive Predictive Value Contrafold: 0.571 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Mastr(seed) Matthews Correlation Coefficient Contrafold: 0.556 Mastr(seed): 0.072 Sensitivity Contrafold: 0.542 Mastr(seed): 0.006 Positive Predictive Value Contrafold: 0.571 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs NanoFolder Matthews Correlation Coefficient Contrafold: 0.556 NanoFolder: 0.068 Sensitivity Contrafold: 0.542 NanoFolder: 0.027 Positive Predictive Value Contrafold: 0.571 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Contrafold vs Multilign(seed) Matthews Correlation Coefficient Contrafold: 0.556 Multilign(seed): 0.059 Sensitivity Contrafold: 0.542 Multilign(seed): 0.005 Positive Predictive Value Contrafold: 0.571 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
MXScarna(seed)	1242 ContextFold vs MXScarna(seed) Matthews Correlation Coefficient ContextFold: 0.754 MXScarna(seed): 0.536 Sensitivity ContextFold: 0.717 MXScarna(seed): 0.382 Positive Predictive Value ContextFold: 0.794 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs MXScarna(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 MXScarna(seed): 0.536 Sensitivity PETfold_pre2.0(seed): 0.667 MXScarna(seed): 0.382 Positive Predictive Value PETfold_pre2.0(seed): 0.814 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs MXScarna(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 MXScarna(seed): 0.536 Sensitivity CentroidAlifold(seed): 0.414 MXScarna(seed): 0.382 Positive Predictive Value CentroidAlifold(seed): 0.901 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs MXScarna(seed) Matthews Correlation Coefficient IPknot: 0.607 MXScarna(seed): 0.536 Sensitivity IPknot: 0.551 MXScarna(seed): 0.382 Positive Predictive Value IPknot: 0.670 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs MXScarna(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 MXScarna(seed): 0.536 Sensitivity PETfold_pre2.0(20): 0.410 MXScarna(seed): 0.382 Positive Predictive Value PETfold_pre2.0(20): 0.807 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs MXScarna(seed) Matthews Correlation Coefficient CentroidFold: 0.571 MXScarna(seed): 0.536 Sensitivity CentroidFold: 0.515 MXScarna(seed): 0.382 Positive Predictive Value CentroidFold: 0.633 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs MXScarna(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 MXScarna(seed): 0.536 Sensitivity CentroidAlifold(20): 0.369 MXScarna(seed): 0.382 Positive Predictive Value CentroidAlifold(20): 0.891 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs MXScarna(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 MXScarna(seed): 0.536 Sensitivity CentroidHomfold‑LAST: 0.359 MXScarna(seed): 0.382 Positive Predictive Value CentroidHomfold‑LAST: 0.874 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs MXScarna(seed) Matthews Correlation Coefficient Contrafold: 0.556 MXScarna(seed): 0.536 Sensitivity Contrafold: 0.542 MXScarna(seed): 0.382 Positive Predictive Value Contrafold: 0.571 MXScarna(seed): 0.753 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ MXScarna(seed) vs RNAalifold(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 RNAalifold(20): 0.532 Sensitivity MXScarna(seed): 0.382 RNAalifold(20): 0.359 Positive Predictive Value MXScarna(seed): 0.753 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 4.1569883686e-08	+ MXScarna(seed) vs Sfold Matthews Correlation Coefficient MXScarna(seed): 0.536 Sfold: 0.527 Sensitivity MXScarna(seed): 0.382 Sfold: 0.477 Positive Predictive Value MXScarna(seed): 0.753 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RNAalifold(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 RNAalifold(seed): 0.523 Sensitivity MXScarna(seed): 0.382 RNAalifold(seed): 0.328 Positive Predictive Value MXScarna(seed): 0.753 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs MaxExpect Matthews Correlation Coefficient MXScarna(seed): 0.536 MaxExpect: 0.516 Sensitivity MXScarna(seed): 0.382 MaxExpect: 0.505 Positive Predictive Value MXScarna(seed): 0.753 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs ProbKnot Matthews Correlation Coefficient MXScarna(seed): 0.536 ProbKnot: 0.512 Sensitivity MXScarna(seed): 0.382 ProbKnot: 0.508 Positive Predictive Value MXScarna(seed): 0.753 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs MXScarna(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 MXScarna(20): 0.500 Sensitivity MXScarna(seed): 0.382 MXScarna(20): 0.353 Positive Predictive Value MXScarna(seed): 0.753 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs UNAFold Matthews Correlation Coefficient MXScarna(seed): 0.536 UNAFold: 0.494 Sensitivity MXScarna(seed): 0.382 UNAFold: 0.491 Positive Predictive Value MXScarna(seed): 0.753 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Fold Matthews Correlation Coefficient MXScarna(seed): 0.536 Fold: 0.493 Sensitivity MXScarna(seed): 0.382 Fold: 0.496 Positive Predictive Value MXScarna(seed): 0.753 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RNAfold Matthews Correlation Coefficient MXScarna(seed): 0.536 RNAfold: 0.485 Sensitivity MXScarna(seed): 0.382 RNAfold: 0.486 Positive Predictive Value MXScarna(seed): 0.753 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs PknotsRG Matthews Correlation Coefficient MXScarna(seed): 0.536 PknotsRG: 0.474 Sensitivity MXScarna(seed): 0.382 PknotsRG: 0.440 Positive Predictive Value MXScarna(seed): 0.753 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs CRWrnafold Matthews Correlation Coefficient MXScarna(seed): 0.536 CRWrnafold: 0.430 Sensitivity MXScarna(seed): 0.382 CRWrnafold: 0.379 Positive Predictive Value MXScarna(seed): 0.753 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RNAsubopt Matthews Correlation Coefficient MXScarna(seed): 0.536 RNAsubopt: 0.422 Sensitivity MXScarna(seed): 0.382 RNAsubopt: 0.344 Positive Predictive Value MXScarna(seed): 0.753 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs TurboFold(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 TurboFold(20): 0.419 Sensitivity MXScarna(seed): 0.382 TurboFold(20): 0.210 Positive Predictive Value MXScarna(seed): 0.753 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs PPfold(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 PPfold(20): 0.416 Sensitivity MXScarna(seed): 0.382 PPfold(20): 0.197 Positive Predictive Value MXScarna(seed): 0.753 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Afold Matthews Correlation Coefficient MXScarna(seed): 0.536 Afold: 0.408 Sensitivity MXScarna(seed): 0.382 Afold: 0.343 Positive Predictive Value MXScarna(seed): 0.753 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Carnac(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 Carnac(20): 0.401 Sensitivity MXScarna(seed): 0.382 Carnac(20): 0.180 Positive Predictive Value MXScarna(seed): 0.753 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs McQFold Matthews Correlation Coefficient MXScarna(seed): 0.536 McQFold: 0.389 Sensitivity MXScarna(seed): 0.382 McQFold: 0.308 Positive Predictive Value MXScarna(seed): 0.753 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RSpredict(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 RSpredict(20): 0.377 Sensitivity MXScarna(seed): 0.382 RSpredict(20): 0.241 Positive Predictive Value MXScarna(seed): 0.753 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RNAshapes Matthews Correlation Coefficient MXScarna(seed): 0.536 RNAshapes: 0.367 Sensitivity MXScarna(seed): 0.382 RNAshapes: 0.285 Positive Predictive Value MXScarna(seed): 0.753 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RNASLOpt Matthews Correlation Coefficient MXScarna(seed): 0.536 RNASLOpt: 0.364 Sensitivity MXScarna(seed): 0.382 RNASLOpt: 0.261 Positive Predictive Value MXScarna(seed): 0.753 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Multilign(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 Multilign(20): 0.350 Sensitivity MXScarna(seed): 0.382 Multilign(20): 0.161 Positive Predictive Value MXScarna(seed): 0.753 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Murlet(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 Murlet(20): 0.321 Sensitivity MXScarna(seed): 0.382 Murlet(20): 0.131 Positive Predictive Value MXScarna(seed): 0.753 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RNAwolf Matthews Correlation Coefficient MXScarna(seed): 0.536 RNAwolf: 0.310 Sensitivity MXScarna(seed): 0.382 RNAwolf: 0.261 Positive Predictive Value MXScarna(seed): 0.753 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RSpredict(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 RSpredict(seed): 0.295 Sensitivity MXScarna(seed): 0.382 RSpredict(seed): 0.146 Positive Predictive Value MXScarna(seed): 0.753 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs CMfinder(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 CMfinder(20): 0.292 Sensitivity MXScarna(seed): 0.382 CMfinder(20): 0.107 Positive Predictive Value MXScarna(seed): 0.753 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Vsfold4 Matthews Correlation Coefficient MXScarna(seed): 0.536 Vsfold4: 0.270 Sensitivity MXScarna(seed): 0.382 Vsfold4: 0.198 Positive Predictive Value MXScarna(seed): 0.753 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Vsfold5 Matthews Correlation Coefficient MXScarna(seed): 0.536 Vsfold5: 0.260 Sensitivity MXScarna(seed): 0.382 Vsfold5: 0.195 Positive Predictive Value MXScarna(seed): 0.753 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RNASampler(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 RNASampler(20): 0.246 Sensitivity MXScarna(seed): 0.382 RNASampler(20): 0.069 Positive Predictive Value MXScarna(seed): 0.753 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs HotKnots Matthews Correlation Coefficient MXScarna(seed): 0.536 HotKnots: 0.212 Sensitivity MXScarna(seed): 0.382 HotKnots: 0.069 Positive Predictive Value MXScarna(seed): 0.753 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Mastr(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 Mastr(20): 0.187 Sensitivity MXScarna(seed): 0.382 Mastr(20): 0.044 Positive Predictive Value MXScarna(seed): 0.753 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Cylofold Matthews Correlation Coefficient MXScarna(seed): 0.536 Cylofold: 0.178 Sensitivity MXScarna(seed): 0.382 Cylofold: 0.053 Positive Predictive Value MXScarna(seed): 0.753 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Pknots Matthews Correlation Coefficient MXScarna(seed): 0.536 Pknots: 0.165 Sensitivity MXScarna(seed): 0.382 Pknots: 0.041 Positive Predictive Value MXScarna(seed): 0.753 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Alterna Matthews Correlation Coefficient MXScarna(seed): 0.536 Alterna: 0.145 Sensitivity MXScarna(seed): 0.382 Alterna: 0.036 Positive Predictive Value MXScarna(seed): 0.753 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs MCFold Matthews Correlation Coefficient MXScarna(seed): 0.536 MCFold: 0.138 Sensitivity MXScarna(seed): 0.382 MCFold: 0.044 Positive Predictive Value MXScarna(seed): 0.753 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RDfolder Matthews Correlation Coefficient MXScarna(seed): 0.536 RDfolder: 0.138 Sensitivity MXScarna(seed): 0.382 RDfolder: 0.031 Positive Predictive Value MXScarna(seed): 0.753 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Murlet(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 Murlet(seed): 0.110 Sensitivity MXScarna(seed): 0.382 Murlet(seed): 0.015 Positive Predictive Value MXScarna(seed): 0.753 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs CMfinder(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 CMfinder(seed): 0.111 Sensitivity MXScarna(seed): 0.382 CMfinder(seed): 0.016 Positive Predictive Value MXScarna(seed): 0.753 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs TurboFold(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 TurboFold(seed): 0.106 Sensitivity MXScarna(seed): 0.382 TurboFold(seed): 0.014 Positive Predictive Value MXScarna(seed): 0.753 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs PPfold(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 PPfold(seed): 0.097 Sensitivity MXScarna(seed): 0.382 PPfold(seed): 0.012 Positive Predictive Value MXScarna(seed): 0.753 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Carnac(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 Carnac(seed): 0.093 Sensitivity MXScarna(seed): 0.382 Carnac(seed): 0.010 Positive Predictive Value MXScarna(seed): 0.753 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs RNASampler(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 RNASampler(seed): 0.088 Sensitivity MXScarna(seed): 0.382 RNASampler(seed): 0.009 Positive Predictive Value MXScarna(seed): 0.753 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Mastr(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 Mastr(seed): 0.072 Sensitivity MXScarna(seed): 0.382 Mastr(seed): 0.006 Positive Predictive Value MXScarna(seed): 0.753 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs NanoFolder Matthews Correlation Coefficient MXScarna(seed): 0.536 NanoFolder: 0.068 Sensitivity MXScarna(seed): 0.382 NanoFolder: 0.027 Positive Predictive Value MXScarna(seed): 0.753 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(seed) vs Multilign(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 Multilign(seed): 0.059 Sensitivity MXScarna(seed): 0.382 Multilign(seed): 0.005 Positive Predictive Value MXScarna(seed): 0.753 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
RNAalifold(20)	1242 ContextFold vs RNAalifold(20) Matthews Correlation Coefficient ContextFold: 0.754 RNAalifold(20): 0.532 Sensitivity ContextFold: 0.717 RNAalifold(20): 0.359 Positive Predictive Value ContextFold: 0.794 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs RNAalifold(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RNAalifold(20): 0.532 Sensitivity PETfold_pre2.0(seed): 0.667 RNAalifold(20): 0.359 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs RNAalifold(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RNAalifold(20): 0.532 Sensitivity CentroidAlifold(seed): 0.414 RNAalifold(20): 0.359 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs RNAalifold(20) Matthews Correlation Coefficient IPknot: 0.607 RNAalifold(20): 0.532 Sensitivity IPknot: 0.551 RNAalifold(20): 0.359 Positive Predictive Value IPknot: 0.670 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs RNAalifold(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RNAalifold(20): 0.532 Sensitivity PETfold_pre2.0(20): 0.410 RNAalifold(20): 0.359 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs RNAalifold(20) Matthews Correlation Coefficient CentroidFold: 0.571 RNAalifold(20): 0.532 Sensitivity CentroidFold: 0.515 RNAalifold(20): 0.359 Positive Predictive Value CentroidFold: 0.633 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs RNAalifold(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RNAalifold(20): 0.532 Sensitivity CentroidAlifold(20): 0.369 RNAalifold(20): 0.359 Positive Predictive Value CentroidAlifold(20): 0.891 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs RNAalifold(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RNAalifold(20): 0.532 Sensitivity CentroidHomfold‑LAST: 0.359 RNAalifold(20): 0.359 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs RNAalifold(20) Matthews Correlation Coefficient Contrafold: 0.556 RNAalifold(20): 0.532 Sensitivity Contrafold: 0.542 RNAalifold(20): 0.359 Positive Predictive Value Contrafold: 0.571 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs RNAalifold(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 RNAalifold(20): 0.532 Sensitivity MXScarna(seed): 0.382 RNAalifold(20): 0.359 Positive Predictive Value MXScarna(seed): 0.753 RNAalifold(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 4.1569883686e-08		+ RNAalifold(20) vs Sfold Matthews Correlation Coefficient RNAalifold(20): 0.532 Sfold: 0.527 Sensitivity RNAalifold(20): 0.359 Sfold: 0.477 Positive Predictive Value RNAalifold(20): 0.787 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 1.14023792096e-06	+ RNAalifold(20) vs RNAalifold(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 RNAalifold(seed): 0.523 Sensitivity RNAalifold(20): 0.359 RNAalifold(seed): 0.328 Positive Predictive Value RNAalifold(20): 0.787 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs MaxExpect Matthews Correlation Coefficient RNAalifold(20): 0.532 MaxExpect: 0.516 Sensitivity RNAalifold(20): 0.359 MaxExpect: 0.505 Positive Predictive Value RNAalifold(20): 0.787 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs ProbKnot Matthews Correlation Coefficient RNAalifold(20): 0.532 ProbKnot: 0.512 Sensitivity RNAalifold(20): 0.359 ProbKnot: 0.508 Positive Predictive Value RNAalifold(20): 0.787 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs MXScarna(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 MXScarna(20): 0.500 Sensitivity RNAalifold(20): 0.359 MXScarna(20): 0.353 Positive Predictive Value RNAalifold(20): 0.787 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs UNAFold Matthews Correlation Coefficient RNAalifold(20): 0.532 UNAFold: 0.494 Sensitivity RNAalifold(20): 0.359 UNAFold: 0.491 Positive Predictive Value RNAalifold(20): 0.787 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Fold Matthews Correlation Coefficient RNAalifold(20): 0.532 Fold: 0.493 Sensitivity RNAalifold(20): 0.359 Fold: 0.496 Positive Predictive Value RNAalifold(20): 0.787 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RNAfold Matthews Correlation Coefficient RNAalifold(20): 0.532 RNAfold: 0.485 Sensitivity RNAalifold(20): 0.359 RNAfold: 0.486 Positive Predictive Value RNAalifold(20): 0.787 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs PknotsRG Matthews Correlation Coefficient RNAalifold(20): 0.532 PknotsRG: 0.474 Sensitivity RNAalifold(20): 0.359 PknotsRG: 0.440 Positive Predictive Value RNAalifold(20): 0.787 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs CRWrnafold Matthews Correlation Coefficient RNAalifold(20): 0.532 CRWrnafold: 0.430 Sensitivity RNAalifold(20): 0.359 CRWrnafold: 0.379 Positive Predictive Value RNAalifold(20): 0.787 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RNAsubopt Matthews Correlation Coefficient RNAalifold(20): 0.532 RNAsubopt: 0.422 Sensitivity RNAalifold(20): 0.359 RNAsubopt: 0.344 Positive Predictive Value RNAalifold(20): 0.787 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs TurboFold(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 TurboFold(20): 0.419 Sensitivity RNAalifold(20): 0.359 TurboFold(20): 0.210 Positive Predictive Value RNAalifold(20): 0.787 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs PPfold(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 PPfold(20): 0.416 Sensitivity RNAalifold(20): 0.359 PPfold(20): 0.197 Positive Predictive Value RNAalifold(20): 0.787 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Afold Matthews Correlation Coefficient RNAalifold(20): 0.532 Afold: 0.408 Sensitivity RNAalifold(20): 0.359 Afold: 0.343 Positive Predictive Value RNAalifold(20): 0.787 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Carnac(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 Carnac(20): 0.401 Sensitivity RNAalifold(20): 0.359 Carnac(20): 0.180 Positive Predictive Value RNAalifold(20): 0.787 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs McQFold Matthews Correlation Coefficient RNAalifold(20): 0.532 McQFold: 0.389 Sensitivity RNAalifold(20): 0.359 McQFold: 0.308 Positive Predictive Value RNAalifold(20): 0.787 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RSpredict(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 RSpredict(20): 0.377 Sensitivity RNAalifold(20): 0.359 RSpredict(20): 0.241 Positive Predictive Value RNAalifold(20): 0.787 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RNAshapes Matthews Correlation Coefficient RNAalifold(20): 0.532 RNAshapes: 0.367 Sensitivity RNAalifold(20): 0.359 RNAshapes: 0.285 Positive Predictive Value RNAalifold(20): 0.787 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RNASLOpt Matthews Correlation Coefficient RNAalifold(20): 0.532 RNASLOpt: 0.364 Sensitivity RNAalifold(20): 0.359 RNASLOpt: 0.261 Positive Predictive Value RNAalifold(20): 0.787 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Multilign(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 Multilign(20): 0.350 Sensitivity RNAalifold(20): 0.359 Multilign(20): 0.161 Positive Predictive Value RNAalifold(20): 0.787 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Murlet(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 Murlet(20): 0.321 Sensitivity RNAalifold(20): 0.359 Murlet(20): 0.131 Positive Predictive Value RNAalifold(20): 0.787 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RNAwolf Matthews Correlation Coefficient RNAalifold(20): 0.532 RNAwolf: 0.310 Sensitivity RNAalifold(20): 0.359 RNAwolf: 0.261 Positive Predictive Value RNAalifold(20): 0.787 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RSpredict(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 RSpredict(seed): 0.295 Sensitivity RNAalifold(20): 0.359 RSpredict(seed): 0.146 Positive Predictive Value RNAalifold(20): 0.787 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs CMfinder(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 CMfinder(20): 0.292 Sensitivity RNAalifold(20): 0.359 CMfinder(20): 0.107 Positive Predictive Value RNAalifold(20): 0.787 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Vsfold4 Matthews Correlation Coefficient RNAalifold(20): 0.532 Vsfold4: 0.270 Sensitivity RNAalifold(20): 0.359 Vsfold4: 0.198 Positive Predictive Value RNAalifold(20): 0.787 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Vsfold5 Matthews Correlation Coefficient RNAalifold(20): 0.532 Vsfold5: 0.260 Sensitivity RNAalifold(20): 0.359 Vsfold5: 0.195 Positive Predictive Value RNAalifold(20): 0.787 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RNASampler(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 RNASampler(20): 0.246 Sensitivity RNAalifold(20): 0.359 RNASampler(20): 0.069 Positive Predictive Value RNAalifold(20): 0.787 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs HotKnots Matthews Correlation Coefficient RNAalifold(20): 0.532 HotKnots: 0.212 Sensitivity RNAalifold(20): 0.359 HotKnots: 0.069 Positive Predictive Value RNAalifold(20): 0.787 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Mastr(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 Mastr(20): 0.187 Sensitivity RNAalifold(20): 0.359 Mastr(20): 0.044 Positive Predictive Value RNAalifold(20): 0.787 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Cylofold Matthews Correlation Coefficient RNAalifold(20): 0.532 Cylofold: 0.178 Sensitivity RNAalifold(20): 0.359 Cylofold: 0.053 Positive Predictive Value RNAalifold(20): 0.787 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Pknots Matthews Correlation Coefficient RNAalifold(20): 0.532 Pknots: 0.165 Sensitivity RNAalifold(20): 0.359 Pknots: 0.041 Positive Predictive Value RNAalifold(20): 0.787 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Alterna Matthews Correlation Coefficient RNAalifold(20): 0.532 Alterna: 0.145 Sensitivity RNAalifold(20): 0.359 Alterna: 0.036 Positive Predictive Value RNAalifold(20): 0.787 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs MCFold Matthews Correlation Coefficient RNAalifold(20): 0.532 MCFold: 0.138 Sensitivity RNAalifold(20): 0.359 MCFold: 0.044 Positive Predictive Value RNAalifold(20): 0.787 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RDfolder Matthews Correlation Coefficient RNAalifold(20): 0.532 RDfolder: 0.138 Sensitivity RNAalifold(20): 0.359 RDfolder: 0.031 Positive Predictive Value RNAalifold(20): 0.787 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Murlet(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 Murlet(seed): 0.110 Sensitivity RNAalifold(20): 0.359 Murlet(seed): 0.015 Positive Predictive Value RNAalifold(20): 0.787 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs CMfinder(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 CMfinder(seed): 0.111 Sensitivity RNAalifold(20): 0.359 CMfinder(seed): 0.016 Positive Predictive Value RNAalifold(20): 0.787 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs TurboFold(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 TurboFold(seed): 0.106 Sensitivity RNAalifold(20): 0.359 TurboFold(seed): 0.014 Positive Predictive Value RNAalifold(20): 0.787 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs PPfold(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 PPfold(seed): 0.097 Sensitivity RNAalifold(20): 0.359 PPfold(seed): 0.012 Positive Predictive Value RNAalifold(20): 0.787 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Carnac(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 Carnac(seed): 0.093 Sensitivity RNAalifold(20): 0.359 Carnac(seed): 0.010 Positive Predictive Value RNAalifold(20): 0.787 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs RNASampler(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 RNASampler(seed): 0.088 Sensitivity RNAalifold(20): 0.359 RNASampler(seed): 0.009 Positive Predictive Value RNAalifold(20): 0.787 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Mastr(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 Mastr(seed): 0.072 Sensitivity RNAalifold(20): 0.359 Mastr(seed): 0.006 Positive Predictive Value RNAalifold(20): 0.787 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs NanoFolder Matthews Correlation Coefficient RNAalifold(20): 0.532 NanoFolder: 0.068 Sensitivity RNAalifold(20): 0.359 NanoFolder: 0.027 Positive Predictive Value RNAalifold(20): 0.787 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(20) vs Multilign(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 Multilign(seed): 0.059 Sensitivity RNAalifold(20): 0.359 Multilign(seed): 0.005 Positive Predictive Value RNAalifold(20): 0.787 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
Sfold	1242 ContextFold vs Sfold Matthews Correlation Coefficient ContextFold: 0.754 Sfold: 0.527 Sensitivity ContextFold: 0.717 Sfold: 0.477 Positive Predictive Value ContextFold: 0.794 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs Sfold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Sfold: 0.527 Sensitivity PETfold_pre2.0(seed): 0.667 Sfold: 0.477 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs Sfold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Sfold: 0.527 Sensitivity CentroidAlifold(seed): 0.414 Sfold: 0.477 Positive Predictive Value CentroidAlifold(seed): 0.901 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs Sfold Matthews Correlation Coefficient IPknot: 0.607 Sfold: 0.527 Sensitivity IPknot: 0.551 Sfold: 0.477 Positive Predictive Value IPknot: 0.670 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs Sfold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Sfold: 0.527 Sensitivity PETfold_pre2.0(20): 0.410 Sfold: 0.477 Positive Predictive Value PETfold_pre2.0(20): 0.807 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs Sfold Matthews Correlation Coefficient CentroidFold: 0.571 Sfold: 0.527 Sensitivity CentroidFold: 0.515 Sfold: 0.477 Positive Predictive Value CentroidFold: 0.633 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs Sfold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Sfold: 0.527 Sensitivity CentroidAlifold(20): 0.369 Sfold: 0.477 Positive Predictive Value CentroidAlifold(20): 0.891 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs Sfold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Sfold: 0.527 Sensitivity CentroidHomfold‑LAST: 0.359 Sfold: 0.477 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs Sfold Matthews Correlation Coefficient Contrafold: 0.556 Sfold: 0.527 Sensitivity Contrafold: 0.542 Sfold: 0.477 Positive Predictive Value Contrafold: 0.571 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs Sfold Matthews Correlation Coefficient MXScarna(seed): 0.536 Sfold: 0.527 Sensitivity MXScarna(seed): 0.382 Sfold: 0.477 Positive Predictive Value MXScarna(seed): 0.753 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs Sfold Matthews Correlation Coefficient RNAalifold(20): 0.532 Sfold: 0.527 Sensitivity RNAalifold(20): 0.359 Sfold: 0.477 Positive Predictive Value RNAalifold(20): 0.787 Sfold: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 1.14023792096e-06		+ Sfold vs RNAalifold(seed) Matthews Correlation Coefficient Sfold: 0.527 RNAalifold(seed): 0.523 Sensitivity Sfold: 0.477 RNAalifold(seed): 0.328 Positive Predictive Value Sfold: 0.582 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 0.000150377120024	+ Sfold vs MaxExpect Matthews Correlation Coefficient Sfold: 0.527 MaxExpect: 0.516 Sensitivity Sfold: 0.477 MaxExpect: 0.505 Positive Predictive Value Sfold: 0.582 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs ProbKnot Matthews Correlation Coefficient Sfold: 0.527 ProbKnot: 0.512 Sensitivity Sfold: 0.477 ProbKnot: 0.508 Positive Predictive Value Sfold: 0.582 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs MXScarna(20) Matthews Correlation Coefficient Sfold: 0.527 MXScarna(20): 0.500 Sensitivity Sfold: 0.477 MXScarna(20): 0.353 Positive Predictive Value Sfold: 0.582 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs UNAFold Matthews Correlation Coefficient Sfold: 0.527 UNAFold: 0.494 Sensitivity Sfold: 0.477 UNAFold: 0.491 Positive Predictive Value Sfold: 0.582 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Fold Matthews Correlation Coefficient Sfold: 0.527 Fold: 0.493 Sensitivity Sfold: 0.477 Fold: 0.496 Positive Predictive Value Sfold: 0.582 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RNAfold Matthews Correlation Coefficient Sfold: 0.527 RNAfold: 0.485 Sensitivity Sfold: 0.477 RNAfold: 0.486 Positive Predictive Value Sfold: 0.582 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs PknotsRG Matthews Correlation Coefficient Sfold: 0.527 PknotsRG: 0.474 Sensitivity Sfold: 0.477 PknotsRG: 0.440 Positive Predictive Value Sfold: 0.582 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs CRWrnafold Matthews Correlation Coefficient Sfold: 0.527 CRWrnafold: 0.430 Sensitivity Sfold: 0.477 CRWrnafold: 0.379 Positive Predictive Value Sfold: 0.582 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RNAsubopt Matthews Correlation Coefficient Sfold: 0.527 RNAsubopt: 0.422 Sensitivity Sfold: 0.477 RNAsubopt: 0.344 Positive Predictive Value Sfold: 0.582 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs TurboFold(20) Matthews Correlation Coefficient Sfold: 0.527 TurboFold(20): 0.419 Sensitivity Sfold: 0.477 TurboFold(20): 0.210 Positive Predictive Value Sfold: 0.582 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs PPfold(20) Matthews Correlation Coefficient Sfold: 0.527 PPfold(20): 0.416 Sensitivity Sfold: 0.477 PPfold(20): 0.197 Positive Predictive Value Sfold: 0.582 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Afold Matthews Correlation Coefficient Sfold: 0.527 Afold: 0.408 Sensitivity Sfold: 0.477 Afold: 0.343 Positive Predictive Value Sfold: 0.582 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Carnac(20) Matthews Correlation Coefficient Sfold: 0.527 Carnac(20): 0.401 Sensitivity Sfold: 0.477 Carnac(20): 0.180 Positive Predictive Value Sfold: 0.582 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs McQFold Matthews Correlation Coefficient Sfold: 0.527 McQFold: 0.389 Sensitivity Sfold: 0.477 McQFold: 0.308 Positive Predictive Value Sfold: 0.582 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RSpredict(20) Matthews Correlation Coefficient Sfold: 0.527 RSpredict(20): 0.377 Sensitivity Sfold: 0.477 RSpredict(20): 0.241 Positive Predictive Value Sfold: 0.582 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RNAshapes Matthews Correlation Coefficient Sfold: 0.527 RNAshapes: 0.367 Sensitivity Sfold: 0.477 RNAshapes: 0.285 Positive Predictive Value Sfold: 0.582 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RNASLOpt Matthews Correlation Coefficient Sfold: 0.527 RNASLOpt: 0.364 Sensitivity Sfold: 0.477 RNASLOpt: 0.261 Positive Predictive Value Sfold: 0.582 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Multilign(20) Matthews Correlation Coefficient Sfold: 0.527 Multilign(20): 0.350 Sensitivity Sfold: 0.477 Multilign(20): 0.161 Positive Predictive Value Sfold: 0.582 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Murlet(20) Matthews Correlation Coefficient Sfold: 0.527 Murlet(20): 0.321 Sensitivity Sfold: 0.477 Murlet(20): 0.131 Positive Predictive Value Sfold: 0.582 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RNAwolf Matthews Correlation Coefficient Sfold: 0.527 RNAwolf: 0.310 Sensitivity Sfold: 0.477 RNAwolf: 0.261 Positive Predictive Value Sfold: 0.582 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RSpredict(seed) Matthews Correlation Coefficient Sfold: 0.527 RSpredict(seed): 0.295 Sensitivity Sfold: 0.477 RSpredict(seed): 0.146 Positive Predictive Value Sfold: 0.582 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs CMfinder(20) Matthews Correlation Coefficient Sfold: 0.527 CMfinder(20): 0.292 Sensitivity Sfold: 0.477 CMfinder(20): 0.107 Positive Predictive Value Sfold: 0.582 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Vsfold4 Matthews Correlation Coefficient Sfold: 0.527 Vsfold4: 0.270 Sensitivity Sfold: 0.477 Vsfold4: 0.198 Positive Predictive Value Sfold: 0.582 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Vsfold5 Matthews Correlation Coefficient Sfold: 0.527 Vsfold5: 0.260 Sensitivity Sfold: 0.477 Vsfold5: 0.195 Positive Predictive Value Sfold: 0.582 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RNASampler(20) Matthews Correlation Coefficient Sfold: 0.527 RNASampler(20): 0.246 Sensitivity Sfold: 0.477 RNASampler(20): 0.069 Positive Predictive Value Sfold: 0.582 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs HotKnots Matthews Correlation Coefficient Sfold: 0.527 HotKnots: 0.212 Sensitivity Sfold: 0.477 HotKnots: 0.069 Positive Predictive Value Sfold: 0.582 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Mastr(20) Matthews Correlation Coefficient Sfold: 0.527 Mastr(20): 0.187 Sensitivity Sfold: 0.477 Mastr(20): 0.044 Positive Predictive Value Sfold: 0.582 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Cylofold Matthews Correlation Coefficient Sfold: 0.527 Cylofold: 0.178 Sensitivity Sfold: 0.477 Cylofold: 0.053 Positive Predictive Value Sfold: 0.582 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Pknots Matthews Correlation Coefficient Sfold: 0.527 Pknots: 0.165 Sensitivity Sfold: 0.477 Pknots: 0.041 Positive Predictive Value Sfold: 0.582 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Alterna Matthews Correlation Coefficient Sfold: 0.527 Alterna: 0.145 Sensitivity Sfold: 0.477 Alterna: 0.036 Positive Predictive Value Sfold: 0.582 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs MCFold Matthews Correlation Coefficient Sfold: 0.527 MCFold: 0.138 Sensitivity Sfold: 0.477 MCFold: 0.044 Positive Predictive Value Sfold: 0.582 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RDfolder Matthews Correlation Coefficient Sfold: 0.527 RDfolder: 0.138 Sensitivity Sfold: 0.477 RDfolder: 0.031 Positive Predictive Value Sfold: 0.582 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Murlet(seed) Matthews Correlation Coefficient Sfold: 0.527 Murlet(seed): 0.110 Sensitivity Sfold: 0.477 Murlet(seed): 0.015 Positive Predictive Value Sfold: 0.582 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs CMfinder(seed) Matthews Correlation Coefficient Sfold: 0.527 CMfinder(seed): 0.111 Sensitivity Sfold: 0.477 CMfinder(seed): 0.016 Positive Predictive Value Sfold: 0.582 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs TurboFold(seed) Matthews Correlation Coefficient Sfold: 0.527 TurboFold(seed): 0.106 Sensitivity Sfold: 0.477 TurboFold(seed): 0.014 Positive Predictive Value Sfold: 0.582 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs PPfold(seed) Matthews Correlation Coefficient Sfold: 0.527 PPfold(seed): 0.097 Sensitivity Sfold: 0.477 PPfold(seed): 0.012 Positive Predictive Value Sfold: 0.582 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Carnac(seed) Matthews Correlation Coefficient Sfold: 0.527 Carnac(seed): 0.093 Sensitivity Sfold: 0.477 Carnac(seed): 0.010 Positive Predictive Value Sfold: 0.582 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs RNASampler(seed) Matthews Correlation Coefficient Sfold: 0.527 RNASampler(seed): 0.088 Sensitivity Sfold: 0.477 RNASampler(seed): 0.009 Positive Predictive Value Sfold: 0.582 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Mastr(seed) Matthews Correlation Coefficient Sfold: 0.527 Mastr(seed): 0.072 Sensitivity Sfold: 0.477 Mastr(seed): 0.006 Positive Predictive Value Sfold: 0.582 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs NanoFolder Matthews Correlation Coefficient Sfold: 0.527 NanoFolder: 0.068 Sensitivity Sfold: 0.477 NanoFolder: 0.027 Positive Predictive Value Sfold: 0.582 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Sfold vs Multilign(seed) Matthews Correlation Coefficient Sfold: 0.527 Multilign(seed): 0.059 Sensitivity Sfold: 0.477 Multilign(seed): 0.005 Positive Predictive Value Sfold: 0.582 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
RNAalifold(seed)	1242 ContextFold vs RNAalifold(seed) Matthews Correlation Coefficient ContextFold: 0.754 RNAalifold(seed): 0.523 Sensitivity ContextFold: 0.717 RNAalifold(seed): 0.328 Positive Predictive Value ContextFold: 0.794 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs RNAalifold(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RNAalifold(seed): 0.523 Sensitivity PETfold_pre2.0(seed): 0.667 RNAalifold(seed): 0.328 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs RNAalifold(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RNAalifold(seed): 0.523 Sensitivity CentroidAlifold(seed): 0.414 RNAalifold(seed): 0.328 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs RNAalifold(seed) Matthews Correlation Coefficient IPknot: 0.607 RNAalifold(seed): 0.523 Sensitivity IPknot: 0.551 RNAalifold(seed): 0.328 Positive Predictive Value IPknot: 0.670 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs RNAalifold(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RNAalifold(seed): 0.523 Sensitivity PETfold_pre2.0(20): 0.410 RNAalifold(seed): 0.328 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs RNAalifold(seed) Matthews Correlation Coefficient CentroidFold: 0.571 RNAalifold(seed): 0.523 Sensitivity CentroidFold: 0.515 RNAalifold(seed): 0.328 Positive Predictive Value CentroidFold: 0.633 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs RNAalifold(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RNAalifold(seed): 0.523 Sensitivity CentroidAlifold(20): 0.369 RNAalifold(seed): 0.328 Positive Predictive Value CentroidAlifold(20): 0.891 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs RNAalifold(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RNAalifold(seed): 0.523 Sensitivity CentroidHomfold‑LAST: 0.359 RNAalifold(seed): 0.328 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs RNAalifold(seed) Matthews Correlation Coefficient Contrafold: 0.556 RNAalifold(seed): 0.523 Sensitivity Contrafold: 0.542 RNAalifold(seed): 0.328 Positive Predictive Value Contrafold: 0.571 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs RNAalifold(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 RNAalifold(seed): 0.523 Sensitivity MXScarna(seed): 0.382 RNAalifold(seed): 0.328 Positive Predictive Value MXScarna(seed): 0.753 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs RNAalifold(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 RNAalifold(seed): 0.523 Sensitivity RNAalifold(20): 0.359 RNAalifold(seed): 0.328 Positive Predictive Value RNAalifold(20): 0.787 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs RNAalifold(seed) Matthews Correlation Coefficient Sfold: 0.527 RNAalifold(seed): 0.523 Sensitivity Sfold: 0.477 RNAalifold(seed): 0.328 Positive Predictive Value Sfold: 0.582 RNAalifold(seed): 0.835 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 0.000150377120024		+ RNAalifold(seed) vs MaxExpect Matthews Correlation Coefficient RNAalifold(seed): 0.523 MaxExpect: 0.516 Sensitivity RNAalifold(seed): 0.328 MaxExpect: 0.505 Positive Predictive Value RNAalifold(seed): 0.835 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.85233844192e-08	+ RNAalifold(seed) vs ProbKnot Matthews Correlation Coefficient RNAalifold(seed): 0.523 ProbKnot: 0.512 Sensitivity RNAalifold(seed): 0.328 ProbKnot: 0.508 Positive Predictive Value RNAalifold(seed): 0.835 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs MXScarna(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 MXScarna(20): 0.500 Sensitivity RNAalifold(seed): 0.328 MXScarna(20): 0.353 Positive Predictive Value RNAalifold(seed): 0.835 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs UNAFold Matthews Correlation Coefficient RNAalifold(seed): 0.523 UNAFold: 0.494 Sensitivity RNAalifold(seed): 0.328 UNAFold: 0.491 Positive Predictive Value RNAalifold(seed): 0.835 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Fold Matthews Correlation Coefficient RNAalifold(seed): 0.523 Fold: 0.493 Sensitivity RNAalifold(seed): 0.328 Fold: 0.496 Positive Predictive Value RNAalifold(seed): 0.835 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RNAfold Matthews Correlation Coefficient RNAalifold(seed): 0.523 RNAfold: 0.485 Sensitivity RNAalifold(seed): 0.328 RNAfold: 0.486 Positive Predictive Value RNAalifold(seed): 0.835 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs PknotsRG Matthews Correlation Coefficient RNAalifold(seed): 0.523 PknotsRG: 0.474 Sensitivity RNAalifold(seed): 0.328 PknotsRG: 0.440 Positive Predictive Value RNAalifold(seed): 0.835 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs CRWrnafold Matthews Correlation Coefficient RNAalifold(seed): 0.523 CRWrnafold: 0.430 Sensitivity RNAalifold(seed): 0.328 CRWrnafold: 0.379 Positive Predictive Value RNAalifold(seed): 0.835 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RNAsubopt Matthews Correlation Coefficient RNAalifold(seed): 0.523 RNAsubopt: 0.422 Sensitivity RNAalifold(seed): 0.328 RNAsubopt: 0.344 Positive Predictive Value RNAalifold(seed): 0.835 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs TurboFold(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 TurboFold(20): 0.419 Sensitivity RNAalifold(seed): 0.328 TurboFold(20): 0.210 Positive Predictive Value RNAalifold(seed): 0.835 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs PPfold(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 PPfold(20): 0.416 Sensitivity RNAalifold(seed): 0.328 PPfold(20): 0.197 Positive Predictive Value RNAalifold(seed): 0.835 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Afold Matthews Correlation Coefficient RNAalifold(seed): 0.523 Afold: 0.408 Sensitivity RNAalifold(seed): 0.328 Afold: 0.343 Positive Predictive Value RNAalifold(seed): 0.835 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Carnac(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 Carnac(20): 0.401 Sensitivity RNAalifold(seed): 0.328 Carnac(20): 0.180 Positive Predictive Value RNAalifold(seed): 0.835 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs McQFold Matthews Correlation Coefficient RNAalifold(seed): 0.523 McQFold: 0.389 Sensitivity RNAalifold(seed): 0.328 McQFold: 0.308 Positive Predictive Value RNAalifold(seed): 0.835 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RSpredict(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 RSpredict(20): 0.377 Sensitivity RNAalifold(seed): 0.328 RSpredict(20): 0.241 Positive Predictive Value RNAalifold(seed): 0.835 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RNAshapes Matthews Correlation Coefficient RNAalifold(seed): 0.523 RNAshapes: 0.367 Sensitivity RNAalifold(seed): 0.328 RNAshapes: 0.285 Positive Predictive Value RNAalifold(seed): 0.835 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RNASLOpt Matthews Correlation Coefficient RNAalifold(seed): 0.523 RNASLOpt: 0.364 Sensitivity RNAalifold(seed): 0.328 RNASLOpt: 0.261 Positive Predictive Value RNAalifold(seed): 0.835 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Multilign(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 Multilign(20): 0.350 Sensitivity RNAalifold(seed): 0.328 Multilign(20): 0.161 Positive Predictive Value RNAalifold(seed): 0.835 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Murlet(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 Murlet(20): 0.321 Sensitivity RNAalifold(seed): 0.328 Murlet(20): 0.131 Positive Predictive Value RNAalifold(seed): 0.835 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RNAwolf Matthews Correlation Coefficient RNAalifold(seed): 0.523 RNAwolf: 0.310 Sensitivity RNAalifold(seed): 0.328 RNAwolf: 0.261 Positive Predictive Value RNAalifold(seed): 0.835 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RSpredict(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.523 RSpredict(seed): 0.295 Sensitivity RNAalifold(seed): 0.328 RSpredict(seed): 0.146 Positive Predictive Value RNAalifold(seed): 0.835 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs CMfinder(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 CMfinder(20): 0.292 Sensitivity RNAalifold(seed): 0.328 CMfinder(20): 0.107 Positive Predictive Value RNAalifold(seed): 0.835 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Vsfold4 Matthews Correlation Coefficient RNAalifold(seed): 0.523 Vsfold4: 0.270 Sensitivity RNAalifold(seed): 0.328 Vsfold4: 0.198 Positive Predictive Value RNAalifold(seed): 0.835 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Vsfold5 Matthews Correlation Coefficient RNAalifold(seed): 0.523 Vsfold5: 0.260 Sensitivity RNAalifold(seed): 0.328 Vsfold5: 0.195 Positive Predictive Value RNAalifold(seed): 0.835 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RNASampler(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 RNASampler(20): 0.246 Sensitivity RNAalifold(seed): 0.328 RNASampler(20): 0.069 Positive Predictive Value RNAalifold(seed): 0.835 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs HotKnots Matthews Correlation Coefficient RNAalifold(seed): 0.523 HotKnots: 0.212 Sensitivity RNAalifold(seed): 0.328 HotKnots: 0.069 Positive Predictive Value RNAalifold(seed): 0.835 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Mastr(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 Mastr(20): 0.187 Sensitivity RNAalifold(seed): 0.328 Mastr(20): 0.044 Positive Predictive Value RNAalifold(seed): 0.835 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Cylofold Matthews Correlation Coefficient RNAalifold(seed): 0.523 Cylofold: 0.178 Sensitivity RNAalifold(seed): 0.328 Cylofold: 0.053 Positive Predictive Value RNAalifold(seed): 0.835 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Pknots Matthews Correlation Coefficient RNAalifold(seed): 0.523 Pknots: 0.165 Sensitivity RNAalifold(seed): 0.328 Pknots: 0.041 Positive Predictive Value RNAalifold(seed): 0.835 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Alterna Matthews Correlation Coefficient RNAalifold(seed): 0.523 Alterna: 0.145 Sensitivity RNAalifold(seed): 0.328 Alterna: 0.036 Positive Predictive Value RNAalifold(seed): 0.835 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs MCFold Matthews Correlation Coefficient RNAalifold(seed): 0.523 MCFold: 0.138 Sensitivity RNAalifold(seed): 0.328 MCFold: 0.044 Positive Predictive Value RNAalifold(seed): 0.835 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RDfolder Matthews Correlation Coefficient RNAalifold(seed): 0.523 RDfolder: 0.138 Sensitivity RNAalifold(seed): 0.328 RDfolder: 0.031 Positive Predictive Value RNAalifold(seed): 0.835 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Murlet(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.523 Murlet(seed): 0.110 Sensitivity RNAalifold(seed): 0.328 Murlet(seed): 0.015 Positive Predictive Value RNAalifold(seed): 0.835 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs CMfinder(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.523 CMfinder(seed): 0.111 Sensitivity RNAalifold(seed): 0.328 CMfinder(seed): 0.016 Positive Predictive Value RNAalifold(seed): 0.835 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs TurboFold(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.523 TurboFold(seed): 0.106 Sensitivity RNAalifold(seed): 0.328 TurboFold(seed): 0.014 Positive Predictive Value RNAalifold(seed): 0.835 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs PPfold(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.523 PPfold(seed): 0.097 Sensitivity RNAalifold(seed): 0.328 PPfold(seed): 0.012 Positive Predictive Value RNAalifold(seed): 0.835 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Carnac(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.523 Carnac(seed): 0.093 Sensitivity RNAalifold(seed): 0.328 Carnac(seed): 0.010 Positive Predictive Value RNAalifold(seed): 0.835 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs RNASampler(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.523 RNASampler(seed): 0.088 Sensitivity RNAalifold(seed): 0.328 RNASampler(seed): 0.009 Positive Predictive Value RNAalifold(seed): 0.835 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Mastr(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.523 Mastr(seed): 0.072 Sensitivity RNAalifold(seed): 0.328 Mastr(seed): 0.006 Positive Predictive Value RNAalifold(seed): 0.835 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs NanoFolder Matthews Correlation Coefficient RNAalifold(seed): 0.523 NanoFolder: 0.068 Sensitivity RNAalifold(seed): 0.328 NanoFolder: 0.027 Positive Predictive Value RNAalifold(seed): 0.835 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAalifold(seed) vs Multilign(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.523 Multilign(seed): 0.059 Sensitivity RNAalifold(seed): 0.328 Multilign(seed): 0.005 Positive Predictive Value RNAalifold(seed): 0.835 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
MaxExpect	1242 ContextFold vs MaxExpect Matthews Correlation Coefficient ContextFold: 0.754 MaxExpect: 0.516 Sensitivity ContextFold: 0.717 MaxExpect: 0.505 Positive Predictive Value ContextFold: 0.794 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs MaxExpect Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 MaxExpect: 0.516 Sensitivity PETfold_pre2.0(seed): 0.667 MaxExpect: 0.505 Positive Predictive Value PETfold_pre2.0(seed): 0.814 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs MaxExpect Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 MaxExpect: 0.516 Sensitivity CentroidAlifold(seed): 0.414 MaxExpect: 0.505 Positive Predictive Value CentroidAlifold(seed): 0.901 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs MaxExpect Matthews Correlation Coefficient IPknot: 0.607 MaxExpect: 0.516 Sensitivity IPknot: 0.551 MaxExpect: 0.505 Positive Predictive Value IPknot: 0.670 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs MaxExpect Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 MaxExpect: 0.516 Sensitivity PETfold_pre2.0(20): 0.410 MaxExpect: 0.505 Positive Predictive Value PETfold_pre2.0(20): 0.807 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs MaxExpect Matthews Correlation Coefficient CentroidFold: 0.571 MaxExpect: 0.516 Sensitivity CentroidFold: 0.515 MaxExpect: 0.505 Positive Predictive Value CentroidFold: 0.633 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs MaxExpect Matthews Correlation Coefficient CentroidAlifold(20): 0.573 MaxExpect: 0.516 Sensitivity CentroidAlifold(20): 0.369 MaxExpect: 0.505 Positive Predictive Value CentroidAlifold(20): 0.891 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs MaxExpect Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 MaxExpect: 0.516 Sensitivity CentroidHomfold‑LAST: 0.359 MaxExpect: 0.505 Positive Predictive Value CentroidHomfold‑LAST: 0.874 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs MaxExpect Matthews Correlation Coefficient Contrafold: 0.556 MaxExpect: 0.516 Sensitivity Contrafold: 0.542 MaxExpect: 0.505 Positive Predictive Value Contrafold: 0.571 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs MaxExpect Matthews Correlation Coefficient MXScarna(seed): 0.536 MaxExpect: 0.516 Sensitivity MXScarna(seed): 0.382 MaxExpect: 0.505 Positive Predictive Value MXScarna(seed): 0.753 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs MaxExpect Matthews Correlation Coefficient RNAalifold(20): 0.532 MaxExpect: 0.516 Sensitivity RNAalifold(20): 0.359 MaxExpect: 0.505 Positive Predictive Value RNAalifold(20): 0.787 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs MaxExpect Matthews Correlation Coefficient Sfold: 0.527 MaxExpect: 0.516 Sensitivity Sfold: 0.477 MaxExpect: 0.505 Positive Predictive Value Sfold: 0.582 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs MaxExpect Matthews Correlation Coefficient RNAalifold(seed): 0.523 MaxExpect: 0.516 Sensitivity RNAalifold(seed): 0.328 MaxExpect: 0.505 Positive Predictive Value RNAalifold(seed): 0.835 MaxExpect: 0.528 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.85233844192e-08		+ MaxExpect vs ProbKnot Matthews Correlation Coefficient MaxExpect: 0.516 ProbKnot: 0.512 Sensitivity MaxExpect: 0.505 ProbKnot: 0.508 Positive Predictive Value MaxExpect: 0.528 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs MXScarna(20) Matthews Correlation Coefficient MaxExpect: 0.516 MXScarna(20): 0.500 Sensitivity MaxExpect: 0.505 MXScarna(20): 0.353 Positive Predictive Value MaxExpect: 0.528 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs UNAFold Matthews Correlation Coefficient MaxExpect: 0.516 UNAFold: 0.494 Sensitivity MaxExpect: 0.505 UNAFold: 0.491 Positive Predictive Value MaxExpect: 0.528 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Fold Matthews Correlation Coefficient MaxExpect: 0.516 Fold: 0.493 Sensitivity MaxExpect: 0.505 Fold: 0.496 Positive Predictive Value MaxExpect: 0.528 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RNAfold Matthews Correlation Coefficient MaxExpect: 0.516 RNAfold: 0.485 Sensitivity MaxExpect: 0.505 RNAfold: 0.486 Positive Predictive Value MaxExpect: 0.528 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs PknotsRG Matthews Correlation Coefficient MaxExpect: 0.516 PknotsRG: 0.474 Sensitivity MaxExpect: 0.505 PknotsRG: 0.440 Positive Predictive Value MaxExpect: 0.528 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs CRWrnafold Matthews Correlation Coefficient MaxExpect: 0.516 CRWrnafold: 0.430 Sensitivity MaxExpect: 0.505 CRWrnafold: 0.379 Positive Predictive Value MaxExpect: 0.528 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RNAsubopt Matthews Correlation Coefficient MaxExpect: 0.516 RNAsubopt: 0.422 Sensitivity MaxExpect: 0.505 RNAsubopt: 0.344 Positive Predictive Value MaxExpect: 0.528 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs TurboFold(20) Matthews Correlation Coefficient MaxExpect: 0.516 TurboFold(20): 0.419 Sensitivity MaxExpect: 0.505 TurboFold(20): 0.210 Positive Predictive Value MaxExpect: 0.528 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs PPfold(20) Matthews Correlation Coefficient MaxExpect: 0.516 PPfold(20): 0.416 Sensitivity MaxExpect: 0.505 PPfold(20): 0.197 Positive Predictive Value MaxExpect: 0.528 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Afold Matthews Correlation Coefficient MaxExpect: 0.516 Afold: 0.408 Sensitivity MaxExpect: 0.505 Afold: 0.343 Positive Predictive Value MaxExpect: 0.528 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Carnac(20) Matthews Correlation Coefficient MaxExpect: 0.516 Carnac(20): 0.401 Sensitivity MaxExpect: 0.505 Carnac(20): 0.180 Positive Predictive Value MaxExpect: 0.528 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs McQFold Matthews Correlation Coefficient MaxExpect: 0.516 McQFold: 0.389 Sensitivity MaxExpect: 0.505 McQFold: 0.308 Positive Predictive Value MaxExpect: 0.528 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RSpredict(20) Matthews Correlation Coefficient MaxExpect: 0.516 RSpredict(20): 0.377 Sensitivity MaxExpect: 0.505 RSpredict(20): 0.241 Positive Predictive Value MaxExpect: 0.528 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RNAshapes Matthews Correlation Coefficient MaxExpect: 0.516 RNAshapes: 0.367 Sensitivity MaxExpect: 0.505 RNAshapes: 0.285 Positive Predictive Value MaxExpect: 0.528 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RNASLOpt Matthews Correlation Coefficient MaxExpect: 0.516 RNASLOpt: 0.364 Sensitivity MaxExpect: 0.505 RNASLOpt: 0.261 Positive Predictive Value MaxExpect: 0.528 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Multilign(20) Matthews Correlation Coefficient MaxExpect: 0.516 Multilign(20): 0.350 Sensitivity MaxExpect: 0.505 Multilign(20): 0.161 Positive Predictive Value MaxExpect: 0.528 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Murlet(20) Matthews Correlation Coefficient MaxExpect: 0.516 Murlet(20): 0.321 Sensitivity MaxExpect: 0.505 Murlet(20): 0.131 Positive Predictive Value MaxExpect: 0.528 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RNAwolf Matthews Correlation Coefficient MaxExpect: 0.516 RNAwolf: 0.310 Sensitivity MaxExpect: 0.505 RNAwolf: 0.261 Positive Predictive Value MaxExpect: 0.528 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RSpredict(seed) Matthews Correlation Coefficient MaxExpect: 0.516 RSpredict(seed): 0.295 Sensitivity MaxExpect: 0.505 RSpredict(seed): 0.146 Positive Predictive Value MaxExpect: 0.528 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs CMfinder(20) Matthews Correlation Coefficient MaxExpect: 0.516 CMfinder(20): 0.292 Sensitivity MaxExpect: 0.505 CMfinder(20): 0.107 Positive Predictive Value MaxExpect: 0.528 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Vsfold4 Matthews Correlation Coefficient MaxExpect: 0.516 Vsfold4: 0.270 Sensitivity MaxExpect: 0.505 Vsfold4: 0.198 Positive Predictive Value MaxExpect: 0.528 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Vsfold5 Matthews Correlation Coefficient MaxExpect: 0.516 Vsfold5: 0.260 Sensitivity MaxExpect: 0.505 Vsfold5: 0.195 Positive Predictive Value MaxExpect: 0.528 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RNASampler(20) Matthews Correlation Coefficient MaxExpect: 0.516 RNASampler(20): 0.246 Sensitivity MaxExpect: 0.505 RNASampler(20): 0.069 Positive Predictive Value MaxExpect: 0.528 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs HotKnots Matthews Correlation Coefficient MaxExpect: 0.516 HotKnots: 0.212 Sensitivity MaxExpect: 0.505 HotKnots: 0.069 Positive Predictive Value MaxExpect: 0.528 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Mastr(20) Matthews Correlation Coefficient MaxExpect: 0.516 Mastr(20): 0.187 Sensitivity MaxExpect: 0.505 Mastr(20): 0.044 Positive Predictive Value MaxExpect: 0.528 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Cylofold Matthews Correlation Coefficient MaxExpect: 0.516 Cylofold: 0.178 Sensitivity MaxExpect: 0.505 Cylofold: 0.053 Positive Predictive Value MaxExpect: 0.528 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Pknots Matthews Correlation Coefficient MaxExpect: 0.516 Pknots: 0.165 Sensitivity MaxExpect: 0.505 Pknots: 0.041 Positive Predictive Value MaxExpect: 0.528 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Alterna Matthews Correlation Coefficient MaxExpect: 0.516 Alterna: 0.145 Sensitivity MaxExpect: 0.505 Alterna: 0.036 Positive Predictive Value MaxExpect: 0.528 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs MCFold Matthews Correlation Coefficient MaxExpect: 0.516 MCFold: 0.138 Sensitivity MaxExpect: 0.505 MCFold: 0.044 Positive Predictive Value MaxExpect: 0.528 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RDfolder Matthews Correlation Coefficient MaxExpect: 0.516 RDfolder: 0.138 Sensitivity MaxExpect: 0.505 RDfolder: 0.031 Positive Predictive Value MaxExpect: 0.528 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Murlet(seed) Matthews Correlation Coefficient MaxExpect: 0.516 Murlet(seed): 0.110 Sensitivity MaxExpect: 0.505 Murlet(seed): 0.015 Positive Predictive Value MaxExpect: 0.528 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs CMfinder(seed) Matthews Correlation Coefficient MaxExpect: 0.516 CMfinder(seed): 0.111 Sensitivity MaxExpect: 0.505 CMfinder(seed): 0.016 Positive Predictive Value MaxExpect: 0.528 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs TurboFold(seed) Matthews Correlation Coefficient MaxExpect: 0.516 TurboFold(seed): 0.106 Sensitivity MaxExpect: 0.505 TurboFold(seed): 0.014 Positive Predictive Value MaxExpect: 0.528 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs PPfold(seed) Matthews Correlation Coefficient MaxExpect: 0.516 PPfold(seed): 0.097 Sensitivity MaxExpect: 0.505 PPfold(seed): 0.012 Positive Predictive Value MaxExpect: 0.528 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Carnac(seed) Matthews Correlation Coefficient MaxExpect: 0.516 Carnac(seed): 0.093 Sensitivity MaxExpect: 0.505 Carnac(seed): 0.010 Positive Predictive Value MaxExpect: 0.528 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs RNASampler(seed) Matthews Correlation Coefficient MaxExpect: 0.516 RNASampler(seed): 0.088 Sensitivity MaxExpect: 0.505 RNASampler(seed): 0.009 Positive Predictive Value MaxExpect: 0.528 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Mastr(seed) Matthews Correlation Coefficient MaxExpect: 0.516 Mastr(seed): 0.072 Sensitivity MaxExpect: 0.505 Mastr(seed): 0.006 Positive Predictive Value MaxExpect: 0.528 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs NanoFolder Matthews Correlation Coefficient MaxExpect: 0.516 NanoFolder: 0.068 Sensitivity MaxExpect: 0.505 NanoFolder: 0.027 Positive Predictive Value MaxExpect: 0.528 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MaxExpect vs Multilign(seed) Matthews Correlation Coefficient MaxExpect: 0.516 Multilign(seed): 0.059 Sensitivity MaxExpect: 0.505 Multilign(seed): 0.005 Positive Predictive Value MaxExpect: 0.528 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
ProbKnot	1242 ContextFold vs ProbKnot Matthews Correlation Coefficient ContextFold: 0.754 ProbKnot: 0.512 Sensitivity ContextFold: 0.717 ProbKnot: 0.508 Positive Predictive Value ContextFold: 0.794 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs ProbKnot Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 ProbKnot: 0.512 Sensitivity PETfold_pre2.0(seed): 0.667 ProbKnot: 0.508 Positive Predictive Value PETfold_pre2.0(seed): 0.814 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs ProbKnot Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 ProbKnot: 0.512 Sensitivity CentroidAlifold(seed): 0.414 ProbKnot: 0.508 Positive Predictive Value CentroidAlifold(seed): 0.901 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs ProbKnot Matthews Correlation Coefficient IPknot: 0.607 ProbKnot: 0.512 Sensitivity IPknot: 0.551 ProbKnot: 0.508 Positive Predictive Value IPknot: 0.670 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs ProbKnot Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 ProbKnot: 0.512 Sensitivity PETfold_pre2.0(20): 0.410 ProbKnot: 0.508 Positive Predictive Value PETfold_pre2.0(20): 0.807 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs ProbKnot Matthews Correlation Coefficient CentroidFold: 0.571 ProbKnot: 0.512 Sensitivity CentroidFold: 0.515 ProbKnot: 0.508 Positive Predictive Value CentroidFold: 0.633 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs ProbKnot Matthews Correlation Coefficient CentroidAlifold(20): 0.573 ProbKnot: 0.512 Sensitivity CentroidAlifold(20): 0.369 ProbKnot: 0.508 Positive Predictive Value CentroidAlifold(20): 0.891 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs ProbKnot Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 ProbKnot: 0.512 Sensitivity CentroidHomfold‑LAST: 0.359 ProbKnot: 0.508 Positive Predictive Value CentroidHomfold‑LAST: 0.874 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs ProbKnot Matthews Correlation Coefficient Contrafold: 0.556 ProbKnot: 0.512 Sensitivity Contrafold: 0.542 ProbKnot: 0.508 Positive Predictive Value Contrafold: 0.571 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs ProbKnot Matthews Correlation Coefficient MXScarna(seed): 0.536 ProbKnot: 0.512 Sensitivity MXScarna(seed): 0.382 ProbKnot: 0.508 Positive Predictive Value MXScarna(seed): 0.753 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs ProbKnot Matthews Correlation Coefficient RNAalifold(20): 0.532 ProbKnot: 0.512 Sensitivity RNAalifold(20): 0.359 ProbKnot: 0.508 Positive Predictive Value RNAalifold(20): 0.787 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs ProbKnot Matthews Correlation Coefficient Sfold: 0.527 ProbKnot: 0.512 Sensitivity Sfold: 0.477 ProbKnot: 0.508 Positive Predictive Value Sfold: 0.582 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs ProbKnot Matthews Correlation Coefficient RNAalifold(seed): 0.523 ProbKnot: 0.512 Sensitivity RNAalifold(seed): 0.328 ProbKnot: 0.508 Positive Predictive Value RNAalifold(seed): 0.835 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs ProbKnot Matthews Correlation Coefficient MaxExpect: 0.516 ProbKnot: 0.512 Sensitivity MaxExpect: 0.505 ProbKnot: 0.508 Positive Predictive Value MaxExpect: 0.528 ProbKnot: 0.517 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ ProbKnot vs MXScarna(20) Matthews Correlation Coefficient ProbKnot: 0.512 MXScarna(20): 0.500 Sensitivity ProbKnot: 0.508 MXScarna(20): 0.353 Positive Predictive Value ProbKnot: 0.517 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs UNAFold Matthews Correlation Coefficient ProbKnot: 0.512 UNAFold: 0.494 Sensitivity ProbKnot: 0.508 UNAFold: 0.491 Positive Predictive Value ProbKnot: 0.517 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Fold Matthews Correlation Coefficient ProbKnot: 0.512 Fold: 0.493 Sensitivity ProbKnot: 0.508 Fold: 0.496 Positive Predictive Value ProbKnot: 0.517 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RNAfold Matthews Correlation Coefficient ProbKnot: 0.512 RNAfold: 0.485 Sensitivity ProbKnot: 0.508 RNAfold: 0.486 Positive Predictive Value ProbKnot: 0.517 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs PknotsRG Matthews Correlation Coefficient ProbKnot: 0.512 PknotsRG: 0.474 Sensitivity ProbKnot: 0.508 PknotsRG: 0.440 Positive Predictive Value ProbKnot: 0.517 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs CRWrnafold Matthews Correlation Coefficient ProbKnot: 0.512 CRWrnafold: 0.430 Sensitivity ProbKnot: 0.508 CRWrnafold: 0.379 Positive Predictive Value ProbKnot: 0.517 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RNAsubopt Matthews Correlation Coefficient ProbKnot: 0.512 RNAsubopt: 0.422 Sensitivity ProbKnot: 0.508 RNAsubopt: 0.344 Positive Predictive Value ProbKnot: 0.517 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs TurboFold(20) Matthews Correlation Coefficient ProbKnot: 0.512 TurboFold(20): 0.419 Sensitivity ProbKnot: 0.508 TurboFold(20): 0.210 Positive Predictive Value ProbKnot: 0.517 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs PPfold(20) Matthews Correlation Coefficient ProbKnot: 0.512 PPfold(20): 0.416 Sensitivity ProbKnot: 0.508 PPfold(20): 0.197 Positive Predictive Value ProbKnot: 0.517 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Afold Matthews Correlation Coefficient ProbKnot: 0.512 Afold: 0.408 Sensitivity ProbKnot: 0.508 Afold: 0.343 Positive Predictive Value ProbKnot: 0.517 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Carnac(20) Matthews Correlation Coefficient ProbKnot: 0.512 Carnac(20): 0.401 Sensitivity ProbKnot: 0.508 Carnac(20): 0.180 Positive Predictive Value ProbKnot: 0.517 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs McQFold Matthews Correlation Coefficient ProbKnot: 0.512 McQFold: 0.389 Sensitivity ProbKnot: 0.508 McQFold: 0.308 Positive Predictive Value ProbKnot: 0.517 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RSpredict(20) Matthews Correlation Coefficient ProbKnot: 0.512 RSpredict(20): 0.377 Sensitivity ProbKnot: 0.508 RSpredict(20): 0.241 Positive Predictive Value ProbKnot: 0.517 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RNAshapes Matthews Correlation Coefficient ProbKnot: 0.512 RNAshapes: 0.367 Sensitivity ProbKnot: 0.508 RNAshapes: 0.285 Positive Predictive Value ProbKnot: 0.517 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RNASLOpt Matthews Correlation Coefficient ProbKnot: 0.512 RNASLOpt: 0.364 Sensitivity ProbKnot: 0.508 RNASLOpt: 0.261 Positive Predictive Value ProbKnot: 0.517 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Multilign(20) Matthews Correlation Coefficient ProbKnot: 0.512 Multilign(20): 0.350 Sensitivity ProbKnot: 0.508 Multilign(20): 0.161 Positive Predictive Value ProbKnot: 0.517 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Murlet(20) Matthews Correlation Coefficient ProbKnot: 0.512 Murlet(20): 0.321 Sensitivity ProbKnot: 0.508 Murlet(20): 0.131 Positive Predictive Value ProbKnot: 0.517 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RNAwolf Matthews Correlation Coefficient ProbKnot: 0.512 RNAwolf: 0.310 Sensitivity ProbKnot: 0.508 RNAwolf: 0.261 Positive Predictive Value ProbKnot: 0.517 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RSpredict(seed) Matthews Correlation Coefficient ProbKnot: 0.512 RSpredict(seed): 0.295 Sensitivity ProbKnot: 0.508 RSpredict(seed): 0.146 Positive Predictive Value ProbKnot: 0.517 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs CMfinder(20) Matthews Correlation Coefficient ProbKnot: 0.512 CMfinder(20): 0.292 Sensitivity ProbKnot: 0.508 CMfinder(20): 0.107 Positive Predictive Value ProbKnot: 0.517 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Vsfold4 Matthews Correlation Coefficient ProbKnot: 0.512 Vsfold4: 0.270 Sensitivity ProbKnot: 0.508 Vsfold4: 0.198 Positive Predictive Value ProbKnot: 0.517 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Vsfold5 Matthews Correlation Coefficient ProbKnot: 0.512 Vsfold5: 0.260 Sensitivity ProbKnot: 0.508 Vsfold5: 0.195 Positive Predictive Value ProbKnot: 0.517 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RNASampler(20) Matthews Correlation Coefficient ProbKnot: 0.512 RNASampler(20): 0.246 Sensitivity ProbKnot: 0.508 RNASampler(20): 0.069 Positive Predictive Value ProbKnot: 0.517 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs HotKnots Matthews Correlation Coefficient ProbKnot: 0.512 HotKnots: 0.212 Sensitivity ProbKnot: 0.508 HotKnots: 0.069 Positive Predictive Value ProbKnot: 0.517 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Mastr(20) Matthews Correlation Coefficient ProbKnot: 0.512 Mastr(20): 0.187 Sensitivity ProbKnot: 0.508 Mastr(20): 0.044 Positive Predictive Value ProbKnot: 0.517 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Cylofold Matthews Correlation Coefficient ProbKnot: 0.512 Cylofold: 0.178 Sensitivity ProbKnot: 0.508 Cylofold: 0.053 Positive Predictive Value ProbKnot: 0.517 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Pknots Matthews Correlation Coefficient ProbKnot: 0.512 Pknots: 0.165 Sensitivity ProbKnot: 0.508 Pknots: 0.041 Positive Predictive Value ProbKnot: 0.517 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Alterna Matthews Correlation Coefficient ProbKnot: 0.512 Alterna: 0.145 Sensitivity ProbKnot: 0.508 Alterna: 0.036 Positive Predictive Value ProbKnot: 0.517 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs MCFold Matthews Correlation Coefficient ProbKnot: 0.512 MCFold: 0.138 Sensitivity ProbKnot: 0.508 MCFold: 0.044 Positive Predictive Value ProbKnot: 0.517 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RDfolder Matthews Correlation Coefficient ProbKnot: 0.512 RDfolder: 0.138 Sensitivity ProbKnot: 0.508 RDfolder: 0.031 Positive Predictive Value ProbKnot: 0.517 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Murlet(seed) Matthews Correlation Coefficient ProbKnot: 0.512 Murlet(seed): 0.110 Sensitivity ProbKnot: 0.508 Murlet(seed): 0.015 Positive Predictive Value ProbKnot: 0.517 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs CMfinder(seed) Matthews Correlation Coefficient ProbKnot: 0.512 CMfinder(seed): 0.111 Sensitivity ProbKnot: 0.508 CMfinder(seed): 0.016 Positive Predictive Value ProbKnot: 0.517 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs TurboFold(seed) Matthews Correlation Coefficient ProbKnot: 0.512 TurboFold(seed): 0.106 Sensitivity ProbKnot: 0.508 TurboFold(seed): 0.014 Positive Predictive Value ProbKnot: 0.517 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs PPfold(seed) Matthews Correlation Coefficient ProbKnot: 0.512 PPfold(seed): 0.097 Sensitivity ProbKnot: 0.508 PPfold(seed): 0.012 Positive Predictive Value ProbKnot: 0.517 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Carnac(seed) Matthews Correlation Coefficient ProbKnot: 0.512 Carnac(seed): 0.093 Sensitivity ProbKnot: 0.508 Carnac(seed): 0.010 Positive Predictive Value ProbKnot: 0.517 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs RNASampler(seed) Matthews Correlation Coefficient ProbKnot: 0.512 RNASampler(seed): 0.088 Sensitivity ProbKnot: 0.508 RNASampler(seed): 0.009 Positive Predictive Value ProbKnot: 0.517 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Mastr(seed) Matthews Correlation Coefficient ProbKnot: 0.512 Mastr(seed): 0.072 Sensitivity ProbKnot: 0.508 Mastr(seed): 0.006 Positive Predictive Value ProbKnot: 0.517 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs NanoFolder Matthews Correlation Coefficient ProbKnot: 0.512 NanoFolder: 0.068 Sensitivity ProbKnot: 0.508 NanoFolder: 0.027 Positive Predictive Value ProbKnot: 0.517 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ ProbKnot vs Multilign(seed) Matthews Correlation Coefficient ProbKnot: 0.512 Multilign(seed): 0.059 Sensitivity ProbKnot: 0.508 Multilign(seed): 0.005 Positive Predictive Value ProbKnot: 0.517 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
MXScarna(20)	1242 ContextFold vs MXScarna(20) Matthews Correlation Coefficient ContextFold: 0.754 MXScarna(20): 0.500 Sensitivity ContextFold: 0.717 MXScarna(20): 0.353 Positive Predictive Value ContextFold: 0.794 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs MXScarna(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 MXScarna(20): 0.500 Sensitivity PETfold_pre2.0(seed): 0.667 MXScarna(20): 0.353 Positive Predictive Value PETfold_pre2.0(seed): 0.814 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs MXScarna(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 MXScarna(20): 0.500 Sensitivity CentroidAlifold(seed): 0.414 MXScarna(20): 0.353 Positive Predictive Value CentroidAlifold(seed): 0.901 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs MXScarna(20) Matthews Correlation Coefficient IPknot: 0.607 MXScarna(20): 0.500 Sensitivity IPknot: 0.551 MXScarna(20): 0.353 Positive Predictive Value IPknot: 0.670 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs MXScarna(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 MXScarna(20): 0.500 Sensitivity PETfold_pre2.0(20): 0.410 MXScarna(20): 0.353 Positive Predictive Value PETfold_pre2.0(20): 0.807 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs MXScarna(20) Matthews Correlation Coefficient CentroidFold: 0.571 MXScarna(20): 0.500 Sensitivity CentroidFold: 0.515 MXScarna(20): 0.353 Positive Predictive Value CentroidFold: 0.633 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs MXScarna(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 MXScarna(20): 0.500 Sensitivity CentroidAlifold(20): 0.369 MXScarna(20): 0.353 Positive Predictive Value CentroidAlifold(20): 0.891 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs MXScarna(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 MXScarna(20): 0.500 Sensitivity CentroidHomfold‑LAST: 0.359 MXScarna(20): 0.353 Positive Predictive Value CentroidHomfold‑LAST: 0.874 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs MXScarna(20) Matthews Correlation Coefficient Contrafold: 0.556 MXScarna(20): 0.500 Sensitivity Contrafold: 0.542 MXScarna(20): 0.353 Positive Predictive Value Contrafold: 0.571 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs MXScarna(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 MXScarna(20): 0.500 Sensitivity MXScarna(seed): 0.382 MXScarna(20): 0.353 Positive Predictive Value MXScarna(seed): 0.753 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs MXScarna(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 MXScarna(20): 0.500 Sensitivity RNAalifold(20): 0.359 MXScarna(20): 0.353 Positive Predictive Value RNAalifold(20): 0.787 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs MXScarna(20) Matthews Correlation Coefficient Sfold: 0.527 MXScarna(20): 0.500 Sensitivity Sfold: 0.477 MXScarna(20): 0.353 Positive Predictive Value Sfold: 0.582 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs MXScarna(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 MXScarna(20): 0.500 Sensitivity RNAalifold(seed): 0.328 MXScarna(20): 0.353 Positive Predictive Value RNAalifold(seed): 0.835 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs MXScarna(20) Matthews Correlation Coefficient MaxExpect: 0.516 MXScarna(20): 0.500 Sensitivity MaxExpect: 0.505 MXScarna(20): 0.353 Positive Predictive Value MaxExpect: 0.528 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs MXScarna(20) Matthews Correlation Coefficient ProbKnot: 0.512 MXScarna(20): 0.500 Sensitivity ProbKnot: 0.508 MXScarna(20): 0.353 Positive Predictive Value ProbKnot: 0.517 MXScarna(20): 0.710 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ MXScarna(20) vs UNAFold Matthews Correlation Coefficient MXScarna(20): 0.500 UNAFold: 0.494 Sensitivity MXScarna(20): 0.353 UNAFold: 0.491 Positive Predictive Value MXScarna(20): 0.710 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Fold Matthews Correlation Coefficient MXScarna(20): 0.500 Fold: 0.493 Sensitivity MXScarna(20): 0.353 Fold: 0.496 Positive Predictive Value MXScarna(20): 0.710 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.85233844192e-08	+ MXScarna(20) vs RNAfold Matthews Correlation Coefficient MXScarna(20): 0.500 RNAfold: 0.485 Sensitivity MXScarna(20): 0.353 RNAfold: 0.486 Positive Predictive Value MXScarna(20): 0.710 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs PknotsRG Matthews Correlation Coefficient MXScarna(20): 0.500 PknotsRG: 0.474 Sensitivity MXScarna(20): 0.353 PknotsRG: 0.440 Positive Predictive Value MXScarna(20): 0.710 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs CRWrnafold Matthews Correlation Coefficient MXScarna(20): 0.500 CRWrnafold: 0.430 Sensitivity MXScarna(20): 0.353 CRWrnafold: 0.379 Positive Predictive Value MXScarna(20): 0.710 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs RNAsubopt Matthews Correlation Coefficient MXScarna(20): 0.500 RNAsubopt: 0.422 Sensitivity MXScarna(20): 0.353 RNAsubopt: 0.344 Positive Predictive Value MXScarna(20): 0.710 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs TurboFold(20) Matthews Correlation Coefficient MXScarna(20): 0.500 TurboFold(20): 0.419 Sensitivity MXScarna(20): 0.353 TurboFold(20): 0.210 Positive Predictive Value MXScarna(20): 0.710 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs PPfold(20) Matthews Correlation Coefficient MXScarna(20): 0.500 PPfold(20): 0.416 Sensitivity MXScarna(20): 0.353 PPfold(20): 0.197 Positive Predictive Value MXScarna(20): 0.710 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Afold Matthews Correlation Coefficient MXScarna(20): 0.500 Afold: 0.408 Sensitivity MXScarna(20): 0.353 Afold: 0.343 Positive Predictive Value MXScarna(20): 0.710 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Carnac(20) Matthews Correlation Coefficient MXScarna(20): 0.500 Carnac(20): 0.401 Sensitivity MXScarna(20): 0.353 Carnac(20): 0.180 Positive Predictive Value MXScarna(20): 0.710 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs McQFold Matthews Correlation Coefficient MXScarna(20): 0.500 McQFold: 0.389 Sensitivity MXScarna(20): 0.353 McQFold: 0.308 Positive Predictive Value MXScarna(20): 0.710 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs RSpredict(20) Matthews Correlation Coefficient MXScarna(20): 0.500 RSpredict(20): 0.377 Sensitivity MXScarna(20): 0.353 RSpredict(20): 0.241 Positive Predictive Value MXScarna(20): 0.710 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs RNAshapes Matthews Correlation Coefficient MXScarna(20): 0.500 RNAshapes: 0.367 Sensitivity MXScarna(20): 0.353 RNAshapes: 0.285 Positive Predictive Value MXScarna(20): 0.710 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs RNASLOpt Matthews Correlation Coefficient MXScarna(20): 0.500 RNASLOpt: 0.364 Sensitivity MXScarna(20): 0.353 RNASLOpt: 0.261 Positive Predictive Value MXScarna(20): 0.710 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Multilign(20) Matthews Correlation Coefficient MXScarna(20): 0.500 Multilign(20): 0.350 Sensitivity MXScarna(20): 0.353 Multilign(20): 0.161 Positive Predictive Value MXScarna(20): 0.710 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Murlet(20) Matthews Correlation Coefficient MXScarna(20): 0.500 Murlet(20): 0.321 Sensitivity MXScarna(20): 0.353 Murlet(20): 0.131 Positive Predictive Value MXScarna(20): 0.710 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs RNAwolf Matthews Correlation Coefficient MXScarna(20): 0.500 RNAwolf: 0.310 Sensitivity MXScarna(20): 0.353 RNAwolf: 0.261 Positive Predictive Value MXScarna(20): 0.710 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs RSpredict(seed) Matthews Correlation Coefficient MXScarna(20): 0.500 RSpredict(seed): 0.295 Sensitivity MXScarna(20): 0.353 RSpredict(seed): 0.146 Positive Predictive Value MXScarna(20): 0.710 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs CMfinder(20) Matthews Correlation Coefficient MXScarna(20): 0.500 CMfinder(20): 0.292 Sensitivity MXScarna(20): 0.353 CMfinder(20): 0.107 Positive Predictive Value MXScarna(20): 0.710 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Vsfold4 Matthews Correlation Coefficient MXScarna(20): 0.500 Vsfold4: 0.270 Sensitivity MXScarna(20): 0.353 Vsfold4: 0.198 Positive Predictive Value MXScarna(20): 0.710 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Vsfold5 Matthews Correlation Coefficient MXScarna(20): 0.500 Vsfold5: 0.260 Sensitivity MXScarna(20): 0.353 Vsfold5: 0.195 Positive Predictive Value MXScarna(20): 0.710 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs RNASampler(20) Matthews Correlation Coefficient MXScarna(20): 0.500 RNASampler(20): 0.246 Sensitivity MXScarna(20): 0.353 RNASampler(20): 0.069 Positive Predictive Value MXScarna(20): 0.710 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs HotKnots Matthews Correlation Coefficient MXScarna(20): 0.500 HotKnots: 0.212 Sensitivity MXScarna(20): 0.353 HotKnots: 0.069 Positive Predictive Value MXScarna(20): 0.710 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Mastr(20) Matthews Correlation Coefficient MXScarna(20): 0.500 Mastr(20): 0.187 Sensitivity MXScarna(20): 0.353 Mastr(20): 0.044 Positive Predictive Value MXScarna(20): 0.710 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Cylofold Matthews Correlation Coefficient MXScarna(20): 0.500 Cylofold: 0.178 Sensitivity MXScarna(20): 0.353 Cylofold: 0.053 Positive Predictive Value MXScarna(20): 0.710 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Pknots Matthews Correlation Coefficient MXScarna(20): 0.500 Pknots: 0.165 Sensitivity MXScarna(20): 0.353 Pknots: 0.041 Positive Predictive Value MXScarna(20): 0.710 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Alterna Matthews Correlation Coefficient MXScarna(20): 0.500 Alterna: 0.145 Sensitivity MXScarna(20): 0.353 Alterna: 0.036 Positive Predictive Value MXScarna(20): 0.710 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs MCFold Matthews Correlation Coefficient MXScarna(20): 0.500 MCFold: 0.138 Sensitivity MXScarna(20): 0.353 MCFold: 0.044 Positive Predictive Value MXScarna(20): 0.710 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs RDfolder Matthews Correlation Coefficient MXScarna(20): 0.500 RDfolder: 0.138 Sensitivity MXScarna(20): 0.353 RDfolder: 0.031 Positive Predictive Value MXScarna(20): 0.710 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Murlet(seed) Matthews Correlation Coefficient MXScarna(20): 0.500 Murlet(seed): 0.110 Sensitivity MXScarna(20): 0.353 Murlet(seed): 0.015 Positive Predictive Value MXScarna(20): 0.710 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs CMfinder(seed) Matthews Correlation Coefficient MXScarna(20): 0.500 CMfinder(seed): 0.111 Sensitivity MXScarna(20): 0.353 CMfinder(seed): 0.016 Positive Predictive Value MXScarna(20): 0.710 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs TurboFold(seed) Matthews Correlation Coefficient MXScarna(20): 0.500 TurboFold(seed): 0.106 Sensitivity MXScarna(20): 0.353 TurboFold(seed): 0.014 Positive Predictive Value MXScarna(20): 0.710 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs PPfold(seed) Matthews Correlation Coefficient MXScarna(20): 0.500 PPfold(seed): 0.097 Sensitivity MXScarna(20): 0.353 PPfold(seed): 0.012 Positive Predictive Value MXScarna(20): 0.710 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Carnac(seed) Matthews Correlation Coefficient MXScarna(20): 0.500 Carnac(seed): 0.093 Sensitivity MXScarna(20): 0.353 Carnac(seed): 0.010 Positive Predictive Value MXScarna(20): 0.710 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs RNASampler(seed) Matthews Correlation Coefficient MXScarna(20): 0.500 RNASampler(seed): 0.088 Sensitivity MXScarna(20): 0.353 RNASampler(seed): 0.009 Positive Predictive Value MXScarna(20): 0.710 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Mastr(seed) Matthews Correlation Coefficient MXScarna(20): 0.500 Mastr(seed): 0.072 Sensitivity MXScarna(20): 0.353 Mastr(seed): 0.006 Positive Predictive Value MXScarna(20): 0.710 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs NanoFolder Matthews Correlation Coefficient MXScarna(20): 0.500 NanoFolder: 0.068 Sensitivity MXScarna(20): 0.353 NanoFolder: 0.027 Positive Predictive Value MXScarna(20): 0.710 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MXScarna(20) vs Multilign(seed) Matthews Correlation Coefficient MXScarna(20): 0.500 Multilign(seed): 0.059 Sensitivity MXScarna(20): 0.353 Multilign(seed): 0.005 Positive Predictive Value MXScarna(20): 0.710 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
UNAFold	1242 ContextFold vs UNAFold Matthews Correlation Coefficient ContextFold: 0.754 UNAFold: 0.494 Sensitivity ContextFold: 0.717 UNAFold: 0.491 Positive Predictive Value ContextFold: 0.794 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs UNAFold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 UNAFold: 0.494 Sensitivity PETfold_pre2.0(seed): 0.667 UNAFold: 0.491 Positive Predictive Value PETfold_pre2.0(seed): 0.814 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs UNAFold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 UNAFold: 0.494 Sensitivity CentroidAlifold(seed): 0.414 UNAFold: 0.491 Positive Predictive Value CentroidAlifold(seed): 0.901 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs UNAFold Matthews Correlation Coefficient IPknot: 0.607 UNAFold: 0.494 Sensitivity IPknot: 0.551 UNAFold: 0.491 Positive Predictive Value IPknot: 0.670 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs UNAFold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 UNAFold: 0.494 Sensitivity PETfold_pre2.0(20): 0.410 UNAFold: 0.491 Positive Predictive Value PETfold_pre2.0(20): 0.807 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs UNAFold Matthews Correlation Coefficient CentroidFold: 0.571 UNAFold: 0.494 Sensitivity CentroidFold: 0.515 UNAFold: 0.491 Positive Predictive Value CentroidFold: 0.633 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs UNAFold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 UNAFold: 0.494 Sensitivity CentroidAlifold(20): 0.369 UNAFold: 0.491 Positive Predictive Value CentroidAlifold(20): 0.891 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs UNAFold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 UNAFold: 0.494 Sensitivity CentroidHomfold‑LAST: 0.359 UNAFold: 0.491 Positive Predictive Value CentroidHomfold‑LAST: 0.874 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs UNAFold Matthews Correlation Coefficient Contrafold: 0.556 UNAFold: 0.494 Sensitivity Contrafold: 0.542 UNAFold: 0.491 Positive Predictive Value Contrafold: 0.571 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs UNAFold Matthews Correlation Coefficient MXScarna(seed): 0.536 UNAFold: 0.494 Sensitivity MXScarna(seed): 0.382 UNAFold: 0.491 Positive Predictive Value MXScarna(seed): 0.753 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs UNAFold Matthews Correlation Coefficient RNAalifold(20): 0.532 UNAFold: 0.494 Sensitivity RNAalifold(20): 0.359 UNAFold: 0.491 Positive Predictive Value RNAalifold(20): 0.787 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs UNAFold Matthews Correlation Coefficient Sfold: 0.527 UNAFold: 0.494 Sensitivity Sfold: 0.477 UNAFold: 0.491 Positive Predictive Value Sfold: 0.582 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs UNAFold Matthews Correlation Coefficient RNAalifold(seed): 0.523 UNAFold: 0.494 Sensitivity RNAalifold(seed): 0.328 UNAFold: 0.491 Positive Predictive Value RNAalifold(seed): 0.835 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs UNAFold Matthews Correlation Coefficient MaxExpect: 0.516 UNAFold: 0.494 Sensitivity MaxExpect: 0.505 UNAFold: 0.491 Positive Predictive Value MaxExpect: 0.528 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs UNAFold Matthews Correlation Coefficient ProbKnot: 0.512 UNAFold: 0.494 Sensitivity ProbKnot: 0.508 UNAFold: 0.491 Positive Predictive Value ProbKnot: 0.517 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs UNAFold Matthews Correlation Coefficient MXScarna(20): 0.500 UNAFold: 0.494 Sensitivity MXScarna(20): 0.353 UNAFold: 0.491 Positive Predictive Value MXScarna(20): 0.710 UNAFold: 0.498 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		= UNAFold vs Fold Matthews Correlation Coefficient UNAFold: 0.494 Fold: 0.493 Sensitivity UNAFold: 0.491 Fold: 0.496 Positive Predictive Value UNAFold: 0.498 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 0.00238364898467	+ UNAFold vs RNAfold Matthews Correlation Coefficient UNAFold: 0.494 RNAfold: 0.485 Sensitivity UNAFold: 0.491 RNAfold: 0.486 Positive Predictive Value UNAFold: 0.498 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs PknotsRG Matthews Correlation Coefficient UNAFold: 0.494 PknotsRG: 0.474 Sensitivity UNAFold: 0.491 PknotsRG: 0.440 Positive Predictive Value UNAFold: 0.498 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs CRWrnafold Matthews Correlation Coefficient UNAFold: 0.494 CRWrnafold: 0.430 Sensitivity UNAFold: 0.491 CRWrnafold: 0.379 Positive Predictive Value UNAFold: 0.498 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RNAsubopt Matthews Correlation Coefficient UNAFold: 0.494 RNAsubopt: 0.422 Sensitivity UNAFold: 0.491 RNAsubopt: 0.344 Positive Predictive Value UNAFold: 0.498 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs TurboFold(20) Matthews Correlation Coefficient UNAFold: 0.494 TurboFold(20): 0.419 Sensitivity UNAFold: 0.491 TurboFold(20): 0.210 Positive Predictive Value UNAFold: 0.498 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs PPfold(20) Matthews Correlation Coefficient UNAFold: 0.494 PPfold(20): 0.416 Sensitivity UNAFold: 0.491 PPfold(20): 0.197 Positive Predictive Value UNAFold: 0.498 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Afold Matthews Correlation Coefficient UNAFold: 0.494 Afold: 0.408 Sensitivity UNAFold: 0.491 Afold: 0.343 Positive Predictive Value UNAFold: 0.498 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Carnac(20) Matthews Correlation Coefficient UNAFold: 0.494 Carnac(20): 0.401 Sensitivity UNAFold: 0.491 Carnac(20): 0.180 Positive Predictive Value UNAFold: 0.498 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs McQFold Matthews Correlation Coefficient UNAFold: 0.494 McQFold: 0.389 Sensitivity UNAFold: 0.491 McQFold: 0.308 Positive Predictive Value UNAFold: 0.498 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RSpredict(20) Matthews Correlation Coefficient UNAFold: 0.494 RSpredict(20): 0.377 Sensitivity UNAFold: 0.491 RSpredict(20): 0.241 Positive Predictive Value UNAFold: 0.498 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RNAshapes Matthews Correlation Coefficient UNAFold: 0.494 RNAshapes: 0.367 Sensitivity UNAFold: 0.491 RNAshapes: 0.285 Positive Predictive Value UNAFold: 0.498 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RNASLOpt Matthews Correlation Coefficient UNAFold: 0.494 RNASLOpt: 0.364 Sensitivity UNAFold: 0.491 RNASLOpt: 0.261 Positive Predictive Value UNAFold: 0.498 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Multilign(20) Matthews Correlation Coefficient UNAFold: 0.494 Multilign(20): 0.350 Sensitivity UNAFold: 0.491 Multilign(20): 0.161 Positive Predictive Value UNAFold: 0.498 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Murlet(20) Matthews Correlation Coefficient UNAFold: 0.494 Murlet(20): 0.321 Sensitivity UNAFold: 0.491 Murlet(20): 0.131 Positive Predictive Value UNAFold: 0.498 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RNAwolf Matthews Correlation Coefficient UNAFold: 0.494 RNAwolf: 0.310 Sensitivity UNAFold: 0.491 RNAwolf: 0.261 Positive Predictive Value UNAFold: 0.498 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RSpredict(seed) Matthews Correlation Coefficient UNAFold: 0.494 RSpredict(seed): 0.295 Sensitivity UNAFold: 0.491 RSpredict(seed): 0.146 Positive Predictive Value UNAFold: 0.498 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs CMfinder(20) Matthews Correlation Coefficient UNAFold: 0.494 CMfinder(20): 0.292 Sensitivity UNAFold: 0.491 CMfinder(20): 0.107 Positive Predictive Value UNAFold: 0.498 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Vsfold4 Matthews Correlation Coefficient UNAFold: 0.494 Vsfold4: 0.270 Sensitivity UNAFold: 0.491 Vsfold4: 0.198 Positive Predictive Value UNAFold: 0.498 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Vsfold5 Matthews Correlation Coefficient UNAFold: 0.494 Vsfold5: 0.260 Sensitivity UNAFold: 0.491 Vsfold5: 0.195 Positive Predictive Value UNAFold: 0.498 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RNASampler(20) Matthews Correlation Coefficient UNAFold: 0.494 RNASampler(20): 0.246 Sensitivity UNAFold: 0.491 RNASampler(20): 0.069 Positive Predictive Value UNAFold: 0.498 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs HotKnots Matthews Correlation Coefficient UNAFold: 0.494 HotKnots: 0.212 Sensitivity UNAFold: 0.491 HotKnots: 0.069 Positive Predictive Value UNAFold: 0.498 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Mastr(20) Matthews Correlation Coefficient UNAFold: 0.494 Mastr(20): 0.187 Sensitivity UNAFold: 0.491 Mastr(20): 0.044 Positive Predictive Value UNAFold: 0.498 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Cylofold Matthews Correlation Coefficient UNAFold: 0.494 Cylofold: 0.178 Sensitivity UNAFold: 0.491 Cylofold: 0.053 Positive Predictive Value UNAFold: 0.498 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Pknots Matthews Correlation Coefficient UNAFold: 0.494 Pknots: 0.165 Sensitivity UNAFold: 0.491 Pknots: 0.041 Positive Predictive Value UNAFold: 0.498 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Alterna Matthews Correlation Coefficient UNAFold: 0.494 Alterna: 0.145 Sensitivity UNAFold: 0.491 Alterna: 0.036 Positive Predictive Value UNAFold: 0.498 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs MCFold Matthews Correlation Coefficient UNAFold: 0.494 MCFold: 0.138 Sensitivity UNAFold: 0.491 MCFold: 0.044 Positive Predictive Value UNAFold: 0.498 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RDfolder Matthews Correlation Coefficient UNAFold: 0.494 RDfolder: 0.138 Sensitivity UNAFold: 0.491 RDfolder: 0.031 Positive Predictive Value UNAFold: 0.498 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Murlet(seed) Matthews Correlation Coefficient UNAFold: 0.494 Murlet(seed): 0.110 Sensitivity UNAFold: 0.491 Murlet(seed): 0.015 Positive Predictive Value UNAFold: 0.498 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs CMfinder(seed) Matthews Correlation Coefficient UNAFold: 0.494 CMfinder(seed): 0.111 Sensitivity UNAFold: 0.491 CMfinder(seed): 0.016 Positive Predictive Value UNAFold: 0.498 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs TurboFold(seed) Matthews Correlation Coefficient UNAFold: 0.494 TurboFold(seed): 0.106 Sensitivity UNAFold: 0.491 TurboFold(seed): 0.014 Positive Predictive Value UNAFold: 0.498 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs PPfold(seed) Matthews Correlation Coefficient UNAFold: 0.494 PPfold(seed): 0.097 Sensitivity UNAFold: 0.491 PPfold(seed): 0.012 Positive Predictive Value UNAFold: 0.498 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Carnac(seed) Matthews Correlation Coefficient UNAFold: 0.494 Carnac(seed): 0.093 Sensitivity UNAFold: 0.491 Carnac(seed): 0.010 Positive Predictive Value UNAFold: 0.498 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs RNASampler(seed) Matthews Correlation Coefficient UNAFold: 0.494 RNASampler(seed): 0.088 Sensitivity UNAFold: 0.491 RNASampler(seed): 0.009 Positive Predictive Value UNAFold: 0.498 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Mastr(seed) Matthews Correlation Coefficient UNAFold: 0.494 Mastr(seed): 0.072 Sensitivity UNAFold: 0.491 Mastr(seed): 0.006 Positive Predictive Value UNAFold: 0.498 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs NanoFolder Matthews Correlation Coefficient UNAFold: 0.494 NanoFolder: 0.068 Sensitivity UNAFold: 0.491 NanoFolder: 0.027 Positive Predictive Value UNAFold: 0.498 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ UNAFold vs Multilign(seed) Matthews Correlation Coefficient UNAFold: 0.494 Multilign(seed): 0.059 Sensitivity UNAFold: 0.491 Multilign(seed): 0.005 Positive Predictive Value UNAFold: 0.498 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
Fold	1242 ContextFold vs Fold Matthews Correlation Coefficient ContextFold: 0.754 Fold: 0.493 Sensitivity ContextFold: 0.717 Fold: 0.496 Positive Predictive Value ContextFold: 0.794 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs Fold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Fold: 0.493 Sensitivity PETfold_pre2.0(seed): 0.667 Fold: 0.496 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs Fold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Fold: 0.493 Sensitivity CentroidAlifold(seed): 0.414 Fold: 0.496 Positive Predictive Value CentroidAlifold(seed): 0.901 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs Fold Matthews Correlation Coefficient IPknot: 0.607 Fold: 0.493 Sensitivity IPknot: 0.551 Fold: 0.496 Positive Predictive Value IPknot: 0.670 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs Fold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Fold: 0.493 Sensitivity PETfold_pre2.0(20): 0.410 Fold: 0.496 Positive Predictive Value PETfold_pre2.0(20): 0.807 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs Fold Matthews Correlation Coefficient CentroidFold: 0.571 Fold: 0.493 Sensitivity CentroidFold: 0.515 Fold: 0.496 Positive Predictive Value CentroidFold: 0.633 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs Fold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Fold: 0.493 Sensitivity CentroidAlifold(20): 0.369 Fold: 0.496 Positive Predictive Value CentroidAlifold(20): 0.891 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs Fold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Fold: 0.493 Sensitivity CentroidHomfold‑LAST: 0.359 Fold: 0.496 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs Fold Matthews Correlation Coefficient Contrafold: 0.556 Fold: 0.493 Sensitivity Contrafold: 0.542 Fold: 0.496 Positive Predictive Value Contrafold: 0.571 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs Fold Matthews Correlation Coefficient MXScarna(seed): 0.536 Fold: 0.493 Sensitivity MXScarna(seed): 0.382 Fold: 0.496 Positive Predictive Value MXScarna(seed): 0.753 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs Fold Matthews Correlation Coefficient RNAalifold(20): 0.532 Fold: 0.493 Sensitivity RNAalifold(20): 0.359 Fold: 0.496 Positive Predictive Value RNAalifold(20): 0.787 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs Fold Matthews Correlation Coefficient Sfold: 0.527 Fold: 0.493 Sensitivity Sfold: 0.477 Fold: 0.496 Positive Predictive Value Sfold: 0.582 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs Fold Matthews Correlation Coefficient RNAalifold(seed): 0.523 Fold: 0.493 Sensitivity RNAalifold(seed): 0.328 Fold: 0.496 Positive Predictive Value RNAalifold(seed): 0.835 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs Fold Matthews Correlation Coefficient MaxExpect: 0.516 Fold: 0.493 Sensitivity MaxExpect: 0.505 Fold: 0.496 Positive Predictive Value MaxExpect: 0.528 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs Fold Matthews Correlation Coefficient ProbKnot: 0.512 Fold: 0.493 Sensitivity ProbKnot: 0.508 Fold: 0.496 Positive Predictive Value ProbKnot: 0.517 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs Fold Matthews Correlation Coefficient MXScarna(20): 0.500 Fold: 0.493 Sensitivity MXScarna(20): 0.353 Fold: 0.496 Positive Predictive Value MXScarna(20): 0.710 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.85233844192e-08	1242 UNAFold vs Fold Matthews Correlation Coefficient UNAFold: 0.494 Fold: 0.493 Sensitivity UNAFold: 0.491 Fold: 0.496 Positive Predictive Value UNAFold: 0.498 Fold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 0.00238364898467		+ Fold vs RNAfold Matthews Correlation Coefficient Fold: 0.493 RNAfold: 0.485 Sensitivity Fold: 0.496 RNAfold: 0.486 Positive Predictive Value Fold: 0.490 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs PknotsRG Matthews Correlation Coefficient Fold: 0.493 PknotsRG: 0.474 Sensitivity Fold: 0.496 PknotsRG: 0.440 Positive Predictive Value Fold: 0.490 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs CRWrnafold Matthews Correlation Coefficient Fold: 0.493 CRWrnafold: 0.430 Sensitivity Fold: 0.496 CRWrnafold: 0.379 Positive Predictive Value Fold: 0.490 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RNAsubopt Matthews Correlation Coefficient Fold: 0.493 RNAsubopt: 0.422 Sensitivity Fold: 0.496 RNAsubopt: 0.344 Positive Predictive Value Fold: 0.490 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs TurboFold(20) Matthews Correlation Coefficient Fold: 0.493 TurboFold(20): 0.419 Sensitivity Fold: 0.496 TurboFold(20): 0.210 Positive Predictive Value Fold: 0.490 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs PPfold(20) Matthews Correlation Coefficient Fold: 0.493 PPfold(20): 0.416 Sensitivity Fold: 0.496 PPfold(20): 0.197 Positive Predictive Value Fold: 0.490 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Afold Matthews Correlation Coefficient Fold: 0.493 Afold: 0.408 Sensitivity Fold: 0.496 Afold: 0.343 Positive Predictive Value Fold: 0.490 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Carnac(20) Matthews Correlation Coefficient Fold: 0.493 Carnac(20): 0.401 Sensitivity Fold: 0.496 Carnac(20): 0.180 Positive Predictive Value Fold: 0.490 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs McQFold Matthews Correlation Coefficient Fold: 0.493 McQFold: 0.389 Sensitivity Fold: 0.496 McQFold: 0.308 Positive Predictive Value Fold: 0.490 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RSpredict(20) Matthews Correlation Coefficient Fold: 0.493 RSpredict(20): 0.377 Sensitivity Fold: 0.496 RSpredict(20): 0.241 Positive Predictive Value Fold: 0.490 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RNAshapes Matthews Correlation Coefficient Fold: 0.493 RNAshapes: 0.367 Sensitivity Fold: 0.496 RNAshapes: 0.285 Positive Predictive Value Fold: 0.490 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RNASLOpt Matthews Correlation Coefficient Fold: 0.493 RNASLOpt: 0.364 Sensitivity Fold: 0.496 RNASLOpt: 0.261 Positive Predictive Value Fold: 0.490 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Multilign(20) Matthews Correlation Coefficient Fold: 0.493 Multilign(20): 0.350 Sensitivity Fold: 0.496 Multilign(20): 0.161 Positive Predictive Value Fold: 0.490 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Murlet(20) Matthews Correlation Coefficient Fold: 0.493 Murlet(20): 0.321 Sensitivity Fold: 0.496 Murlet(20): 0.131 Positive Predictive Value Fold: 0.490 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RNAwolf Matthews Correlation Coefficient Fold: 0.493 RNAwolf: 0.310 Sensitivity Fold: 0.496 RNAwolf: 0.261 Positive Predictive Value Fold: 0.490 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RSpredict(seed) Matthews Correlation Coefficient Fold: 0.493 RSpredict(seed): 0.295 Sensitivity Fold: 0.496 RSpredict(seed): 0.146 Positive Predictive Value Fold: 0.490 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs CMfinder(20) Matthews Correlation Coefficient Fold: 0.493 CMfinder(20): 0.292 Sensitivity Fold: 0.496 CMfinder(20): 0.107 Positive Predictive Value Fold: 0.490 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Vsfold4 Matthews Correlation Coefficient Fold: 0.493 Vsfold4: 0.270 Sensitivity Fold: 0.496 Vsfold4: 0.198 Positive Predictive Value Fold: 0.490 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Vsfold5 Matthews Correlation Coefficient Fold: 0.493 Vsfold5: 0.260 Sensitivity Fold: 0.496 Vsfold5: 0.195 Positive Predictive Value Fold: 0.490 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RNASampler(20) Matthews Correlation Coefficient Fold: 0.493 RNASampler(20): 0.246 Sensitivity Fold: 0.496 RNASampler(20): 0.069 Positive Predictive Value Fold: 0.490 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs HotKnots Matthews Correlation Coefficient Fold: 0.493 HotKnots: 0.212 Sensitivity Fold: 0.496 HotKnots: 0.069 Positive Predictive Value Fold: 0.490 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Mastr(20) Matthews Correlation Coefficient Fold: 0.493 Mastr(20): 0.187 Sensitivity Fold: 0.496 Mastr(20): 0.044 Positive Predictive Value Fold: 0.490 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Cylofold Matthews Correlation Coefficient Fold: 0.493 Cylofold: 0.178 Sensitivity Fold: 0.496 Cylofold: 0.053 Positive Predictive Value Fold: 0.490 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Pknots Matthews Correlation Coefficient Fold: 0.493 Pknots: 0.165 Sensitivity Fold: 0.496 Pknots: 0.041 Positive Predictive Value Fold: 0.490 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Alterna Matthews Correlation Coefficient Fold: 0.493 Alterna: 0.145 Sensitivity Fold: 0.496 Alterna: 0.036 Positive Predictive Value Fold: 0.490 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs MCFold Matthews Correlation Coefficient Fold: 0.493 MCFold: 0.138 Sensitivity Fold: 0.496 MCFold: 0.044 Positive Predictive Value Fold: 0.490 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RDfolder Matthews Correlation Coefficient Fold: 0.493 RDfolder: 0.138 Sensitivity Fold: 0.496 RDfolder: 0.031 Positive Predictive Value Fold: 0.490 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Murlet(seed) Matthews Correlation Coefficient Fold: 0.493 Murlet(seed): 0.110 Sensitivity Fold: 0.496 Murlet(seed): 0.015 Positive Predictive Value Fold: 0.490 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs CMfinder(seed) Matthews Correlation Coefficient Fold: 0.493 CMfinder(seed): 0.111 Sensitivity Fold: 0.496 CMfinder(seed): 0.016 Positive Predictive Value Fold: 0.490 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs TurboFold(seed) Matthews Correlation Coefficient Fold: 0.493 TurboFold(seed): 0.106 Sensitivity Fold: 0.496 TurboFold(seed): 0.014 Positive Predictive Value Fold: 0.490 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs PPfold(seed) Matthews Correlation Coefficient Fold: 0.493 PPfold(seed): 0.097 Sensitivity Fold: 0.496 PPfold(seed): 0.012 Positive Predictive Value Fold: 0.490 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Carnac(seed) Matthews Correlation Coefficient Fold: 0.493 Carnac(seed): 0.093 Sensitivity Fold: 0.496 Carnac(seed): 0.010 Positive Predictive Value Fold: 0.490 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs RNASampler(seed) Matthews Correlation Coefficient Fold: 0.493 RNASampler(seed): 0.088 Sensitivity Fold: 0.496 RNASampler(seed): 0.009 Positive Predictive Value Fold: 0.490 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Mastr(seed) Matthews Correlation Coefficient Fold: 0.493 Mastr(seed): 0.072 Sensitivity Fold: 0.496 Mastr(seed): 0.006 Positive Predictive Value Fold: 0.490 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs NanoFolder Matthews Correlation Coefficient Fold: 0.493 NanoFolder: 0.068 Sensitivity Fold: 0.496 NanoFolder: 0.027 Positive Predictive Value Fold: 0.490 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Fold vs Multilign(seed) Matthews Correlation Coefficient Fold: 0.493 Multilign(seed): 0.059 Sensitivity Fold: 0.496 Multilign(seed): 0.005 Positive Predictive Value Fold: 0.490 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
RNAfold	1242 ContextFold vs RNAfold Matthews Correlation Coefficient ContextFold: 0.754 RNAfold: 0.485 Sensitivity ContextFold: 0.717 RNAfold: 0.486 Positive Predictive Value ContextFold: 0.794 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs RNAfold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RNAfold: 0.485 Sensitivity PETfold_pre2.0(seed): 0.667 RNAfold: 0.486 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs RNAfold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RNAfold: 0.485 Sensitivity CentroidAlifold(seed): 0.414 RNAfold: 0.486 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs RNAfold Matthews Correlation Coefficient IPknot: 0.607 RNAfold: 0.485 Sensitivity IPknot: 0.551 RNAfold: 0.486 Positive Predictive Value IPknot: 0.670 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs RNAfold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RNAfold: 0.485 Sensitivity PETfold_pre2.0(20): 0.410 RNAfold: 0.486 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs RNAfold Matthews Correlation Coefficient CentroidFold: 0.571 RNAfold: 0.485 Sensitivity CentroidFold: 0.515 RNAfold: 0.486 Positive Predictive Value CentroidFold: 0.633 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs RNAfold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RNAfold: 0.485 Sensitivity CentroidAlifold(20): 0.369 RNAfold: 0.486 Positive Predictive Value CentroidAlifold(20): 0.891 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs RNAfold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RNAfold: 0.485 Sensitivity CentroidHomfold‑LAST: 0.359 RNAfold: 0.486 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs RNAfold Matthews Correlation Coefficient Contrafold: 0.556 RNAfold: 0.485 Sensitivity Contrafold: 0.542 RNAfold: 0.486 Positive Predictive Value Contrafold: 0.571 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs RNAfold Matthews Correlation Coefficient MXScarna(seed): 0.536 RNAfold: 0.485 Sensitivity MXScarna(seed): 0.382 RNAfold: 0.486 Positive Predictive Value MXScarna(seed): 0.753 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs RNAfold Matthews Correlation Coefficient RNAalifold(20): 0.532 RNAfold: 0.485 Sensitivity RNAalifold(20): 0.359 RNAfold: 0.486 Positive Predictive Value RNAalifold(20): 0.787 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs RNAfold Matthews Correlation Coefficient Sfold: 0.527 RNAfold: 0.485 Sensitivity Sfold: 0.477 RNAfold: 0.486 Positive Predictive Value Sfold: 0.582 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs RNAfold Matthews Correlation Coefficient RNAalifold(seed): 0.523 RNAfold: 0.485 Sensitivity RNAalifold(seed): 0.328 RNAfold: 0.486 Positive Predictive Value RNAalifold(seed): 0.835 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs RNAfold Matthews Correlation Coefficient MaxExpect: 0.516 RNAfold: 0.485 Sensitivity MaxExpect: 0.505 RNAfold: 0.486 Positive Predictive Value MaxExpect: 0.528 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs RNAfold Matthews Correlation Coefficient ProbKnot: 0.512 RNAfold: 0.485 Sensitivity ProbKnot: 0.508 RNAfold: 0.486 Positive Predictive Value ProbKnot: 0.517 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs RNAfold Matthews Correlation Coefficient MXScarna(20): 0.500 RNAfold: 0.485 Sensitivity MXScarna(20): 0.353 RNAfold: 0.486 Positive Predictive Value MXScarna(20): 0.710 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs RNAfold Matthews Correlation Coefficient UNAFold: 0.494 RNAfold: 0.485 Sensitivity UNAFold: 0.491 RNAfold: 0.486 Positive Predictive Value UNAFold: 0.498 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs RNAfold Matthews Correlation Coefficient Fold: 0.493 RNAfold: 0.485 Sensitivity Fold: 0.496 RNAfold: 0.486 Positive Predictive Value Fold: 0.490 RNAfold: 0.485 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ RNAfold vs PknotsRG Matthews Correlation Coefficient RNAfold: 0.485 PknotsRG: 0.474 Sensitivity RNAfold: 0.486 PknotsRG: 0.440 Positive Predictive Value RNAfold: 0.485 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs CRWrnafold Matthews Correlation Coefficient RNAfold: 0.485 CRWrnafold: 0.430 Sensitivity RNAfold: 0.486 CRWrnafold: 0.379 Positive Predictive Value RNAfold: 0.485 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RNAsubopt Matthews Correlation Coefficient RNAfold: 0.485 RNAsubopt: 0.422 Sensitivity RNAfold: 0.486 RNAsubopt: 0.344 Positive Predictive Value RNAfold: 0.485 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs TurboFold(20) Matthews Correlation Coefficient RNAfold: 0.485 TurboFold(20): 0.419 Sensitivity RNAfold: 0.486 TurboFold(20): 0.210 Positive Predictive Value RNAfold: 0.485 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs PPfold(20) Matthews Correlation Coefficient RNAfold: 0.485 PPfold(20): 0.416 Sensitivity RNAfold: 0.486 PPfold(20): 0.197 Positive Predictive Value RNAfold: 0.485 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Afold Matthews Correlation Coefficient RNAfold: 0.485 Afold: 0.408 Sensitivity RNAfold: 0.486 Afold: 0.343 Positive Predictive Value RNAfold: 0.485 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Carnac(20) Matthews Correlation Coefficient RNAfold: 0.485 Carnac(20): 0.401 Sensitivity RNAfold: 0.486 Carnac(20): 0.180 Positive Predictive Value RNAfold: 0.485 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs McQFold Matthews Correlation Coefficient RNAfold: 0.485 McQFold: 0.389 Sensitivity RNAfold: 0.486 McQFold: 0.308 Positive Predictive Value RNAfold: 0.485 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RSpredict(20) Matthews Correlation Coefficient RNAfold: 0.485 RSpredict(20): 0.377 Sensitivity RNAfold: 0.486 RSpredict(20): 0.241 Positive Predictive Value RNAfold: 0.485 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RNAshapes Matthews Correlation Coefficient RNAfold: 0.485 RNAshapes: 0.367 Sensitivity RNAfold: 0.486 RNAshapes: 0.285 Positive Predictive Value RNAfold: 0.485 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RNASLOpt Matthews Correlation Coefficient RNAfold: 0.485 RNASLOpt: 0.364 Sensitivity RNAfold: 0.486 RNASLOpt: 0.261 Positive Predictive Value RNAfold: 0.485 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Multilign(20) Matthews Correlation Coefficient RNAfold: 0.485 Multilign(20): 0.350 Sensitivity RNAfold: 0.486 Multilign(20): 0.161 Positive Predictive Value RNAfold: 0.485 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Murlet(20) Matthews Correlation Coefficient RNAfold: 0.485 Murlet(20): 0.321 Sensitivity RNAfold: 0.486 Murlet(20): 0.131 Positive Predictive Value RNAfold: 0.485 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RNAwolf Matthews Correlation Coefficient RNAfold: 0.485 RNAwolf: 0.310 Sensitivity RNAfold: 0.486 RNAwolf: 0.261 Positive Predictive Value RNAfold: 0.485 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RSpredict(seed) Matthews Correlation Coefficient RNAfold: 0.485 RSpredict(seed): 0.295 Sensitivity RNAfold: 0.486 RSpredict(seed): 0.146 Positive Predictive Value RNAfold: 0.485 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs CMfinder(20) Matthews Correlation Coefficient RNAfold: 0.485 CMfinder(20): 0.292 Sensitivity RNAfold: 0.486 CMfinder(20): 0.107 Positive Predictive Value RNAfold: 0.485 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Vsfold4 Matthews Correlation Coefficient RNAfold: 0.485 Vsfold4: 0.270 Sensitivity RNAfold: 0.486 Vsfold4: 0.198 Positive Predictive Value RNAfold: 0.485 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Vsfold5 Matthews Correlation Coefficient RNAfold: 0.485 Vsfold5: 0.260 Sensitivity RNAfold: 0.486 Vsfold5: 0.195 Positive Predictive Value RNAfold: 0.485 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RNASampler(20) Matthews Correlation Coefficient RNAfold: 0.485 RNASampler(20): 0.246 Sensitivity RNAfold: 0.486 RNASampler(20): 0.069 Positive Predictive Value RNAfold: 0.485 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs HotKnots Matthews Correlation Coefficient RNAfold: 0.485 HotKnots: 0.212 Sensitivity RNAfold: 0.486 HotKnots: 0.069 Positive Predictive Value RNAfold: 0.485 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Mastr(20) Matthews Correlation Coefficient RNAfold: 0.485 Mastr(20): 0.187 Sensitivity RNAfold: 0.486 Mastr(20): 0.044 Positive Predictive Value RNAfold: 0.485 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Cylofold Matthews Correlation Coefficient RNAfold: 0.485 Cylofold: 0.178 Sensitivity RNAfold: 0.486 Cylofold: 0.053 Positive Predictive Value RNAfold: 0.485 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Pknots Matthews Correlation Coefficient RNAfold: 0.485 Pknots: 0.165 Sensitivity RNAfold: 0.486 Pknots: 0.041 Positive Predictive Value RNAfold: 0.485 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Alterna Matthews Correlation Coefficient RNAfold: 0.485 Alterna: 0.145 Sensitivity RNAfold: 0.486 Alterna: 0.036 Positive Predictive Value RNAfold: 0.485 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs MCFold Matthews Correlation Coefficient RNAfold: 0.485 MCFold: 0.138 Sensitivity RNAfold: 0.486 MCFold: 0.044 Positive Predictive Value RNAfold: 0.485 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RDfolder Matthews Correlation Coefficient RNAfold: 0.485 RDfolder: 0.138 Sensitivity RNAfold: 0.486 RDfolder: 0.031 Positive Predictive Value RNAfold: 0.485 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Murlet(seed) Matthews Correlation Coefficient RNAfold: 0.485 Murlet(seed): 0.110 Sensitivity RNAfold: 0.486 Murlet(seed): 0.015 Positive Predictive Value RNAfold: 0.485 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs CMfinder(seed) Matthews Correlation Coefficient RNAfold: 0.485 CMfinder(seed): 0.111 Sensitivity RNAfold: 0.486 CMfinder(seed): 0.016 Positive Predictive Value RNAfold: 0.485 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs TurboFold(seed) Matthews Correlation Coefficient RNAfold: 0.485 TurboFold(seed): 0.106 Sensitivity RNAfold: 0.486 TurboFold(seed): 0.014 Positive Predictive Value RNAfold: 0.485 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs PPfold(seed) Matthews Correlation Coefficient RNAfold: 0.485 PPfold(seed): 0.097 Sensitivity RNAfold: 0.486 PPfold(seed): 0.012 Positive Predictive Value RNAfold: 0.485 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Carnac(seed) Matthews Correlation Coefficient RNAfold: 0.485 Carnac(seed): 0.093 Sensitivity RNAfold: 0.486 Carnac(seed): 0.010 Positive Predictive Value RNAfold: 0.485 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs RNASampler(seed) Matthews Correlation Coefficient RNAfold: 0.485 RNASampler(seed): 0.088 Sensitivity RNAfold: 0.486 RNASampler(seed): 0.009 Positive Predictive Value RNAfold: 0.485 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Mastr(seed) Matthews Correlation Coefficient RNAfold: 0.485 Mastr(seed): 0.072 Sensitivity RNAfold: 0.486 Mastr(seed): 0.006 Positive Predictive Value RNAfold: 0.485 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs NanoFolder Matthews Correlation Coefficient RNAfold: 0.485 NanoFolder: 0.068 Sensitivity RNAfold: 0.486 NanoFolder: 0.027 Positive Predictive Value RNAfold: 0.485 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAfold vs Multilign(seed) Matthews Correlation Coefficient RNAfold: 0.485 Multilign(seed): 0.059 Sensitivity RNAfold: 0.486 Multilign(seed): 0.005 Positive Predictive Value RNAfold: 0.485 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
PknotsRG	1242 ContextFold vs PknotsRG Matthews Correlation Coefficient ContextFold: 0.754 PknotsRG: 0.474 Sensitivity ContextFold: 0.717 PknotsRG: 0.440 Positive Predictive Value ContextFold: 0.794 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs PknotsRG Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 PknotsRG: 0.474 Sensitivity PETfold_pre2.0(seed): 0.667 PknotsRG: 0.440 Positive Predictive Value PETfold_pre2.0(seed): 0.814 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs PknotsRG Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 PknotsRG: 0.474 Sensitivity CentroidAlifold(seed): 0.414 PknotsRG: 0.440 Positive Predictive Value CentroidAlifold(seed): 0.901 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs PknotsRG Matthews Correlation Coefficient IPknot: 0.607 PknotsRG: 0.474 Sensitivity IPknot: 0.551 PknotsRG: 0.440 Positive Predictive Value IPknot: 0.670 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs PknotsRG Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 PknotsRG: 0.474 Sensitivity PETfold_pre2.0(20): 0.410 PknotsRG: 0.440 Positive Predictive Value PETfold_pre2.0(20): 0.807 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs PknotsRG Matthews Correlation Coefficient CentroidFold: 0.571 PknotsRG: 0.474 Sensitivity CentroidFold: 0.515 PknotsRG: 0.440 Positive Predictive Value CentroidFold: 0.633 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs PknotsRG Matthews Correlation Coefficient CentroidAlifold(20): 0.573 PknotsRG: 0.474 Sensitivity CentroidAlifold(20): 0.369 PknotsRG: 0.440 Positive Predictive Value CentroidAlifold(20): 0.891 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs PknotsRG Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 PknotsRG: 0.474 Sensitivity CentroidHomfold‑LAST: 0.359 PknotsRG: 0.440 Positive Predictive Value CentroidHomfold‑LAST: 0.874 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs PknotsRG Matthews Correlation Coefficient Contrafold: 0.556 PknotsRG: 0.474 Sensitivity Contrafold: 0.542 PknotsRG: 0.440 Positive Predictive Value Contrafold: 0.571 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs PknotsRG Matthews Correlation Coefficient MXScarna(seed): 0.536 PknotsRG: 0.474 Sensitivity MXScarna(seed): 0.382 PknotsRG: 0.440 Positive Predictive Value MXScarna(seed): 0.753 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs PknotsRG Matthews Correlation Coefficient RNAalifold(20): 0.532 PknotsRG: 0.474 Sensitivity RNAalifold(20): 0.359 PknotsRG: 0.440 Positive Predictive Value RNAalifold(20): 0.787 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs PknotsRG Matthews Correlation Coefficient Sfold: 0.527 PknotsRG: 0.474 Sensitivity Sfold: 0.477 PknotsRG: 0.440 Positive Predictive Value Sfold: 0.582 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs PknotsRG Matthews Correlation Coefficient RNAalifold(seed): 0.523 PknotsRG: 0.474 Sensitivity RNAalifold(seed): 0.328 PknotsRG: 0.440 Positive Predictive Value RNAalifold(seed): 0.835 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs PknotsRG Matthews Correlation Coefficient MaxExpect: 0.516 PknotsRG: 0.474 Sensitivity MaxExpect: 0.505 PknotsRG: 0.440 Positive Predictive Value MaxExpect: 0.528 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs PknotsRG Matthews Correlation Coefficient ProbKnot: 0.512 PknotsRG: 0.474 Sensitivity ProbKnot: 0.508 PknotsRG: 0.440 Positive Predictive Value ProbKnot: 0.517 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs PknotsRG Matthews Correlation Coefficient MXScarna(20): 0.500 PknotsRG: 0.474 Sensitivity MXScarna(20): 0.353 PknotsRG: 0.440 Positive Predictive Value MXScarna(20): 0.710 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs PknotsRG Matthews Correlation Coefficient UNAFold: 0.494 PknotsRG: 0.474 Sensitivity UNAFold: 0.491 PknotsRG: 0.440 Positive Predictive Value UNAFold: 0.498 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs PknotsRG Matthews Correlation Coefficient Fold: 0.493 PknotsRG: 0.474 Sensitivity Fold: 0.496 PknotsRG: 0.440 Positive Predictive Value Fold: 0.490 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs PknotsRG Matthews Correlation Coefficient RNAfold: 0.485 PknotsRG: 0.474 Sensitivity RNAfold: 0.486 PknotsRG: 0.440 Positive Predictive Value RNAfold: 0.485 PknotsRG: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ PknotsRG vs CRWrnafold Matthews Correlation Coefficient PknotsRG: 0.474 CRWrnafold: 0.430 Sensitivity PknotsRG: 0.440 CRWrnafold: 0.379 Positive Predictive Value PknotsRG: 0.510 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs RNAsubopt Matthews Correlation Coefficient PknotsRG: 0.474 RNAsubopt: 0.422 Sensitivity PknotsRG: 0.440 RNAsubopt: 0.344 Positive Predictive Value PknotsRG: 0.510 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs TurboFold(20) Matthews Correlation Coefficient PknotsRG: 0.474 TurboFold(20): 0.419 Sensitivity PknotsRG: 0.440 TurboFold(20): 0.210 Positive Predictive Value PknotsRG: 0.510 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs PPfold(20) Matthews Correlation Coefficient PknotsRG: 0.474 PPfold(20): 0.416 Sensitivity PknotsRG: 0.440 PPfold(20): 0.197 Positive Predictive Value PknotsRG: 0.510 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Afold Matthews Correlation Coefficient PknotsRG: 0.474 Afold: 0.408 Sensitivity PknotsRG: 0.440 Afold: 0.343 Positive Predictive Value PknotsRG: 0.510 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Carnac(20) Matthews Correlation Coefficient PknotsRG: 0.474 Carnac(20): 0.401 Sensitivity PknotsRG: 0.440 Carnac(20): 0.180 Positive Predictive Value PknotsRG: 0.510 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs McQFold Matthews Correlation Coefficient PknotsRG: 0.474 McQFold: 0.389 Sensitivity PknotsRG: 0.440 McQFold: 0.308 Positive Predictive Value PknotsRG: 0.510 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs RSpredict(20) Matthews Correlation Coefficient PknotsRG: 0.474 RSpredict(20): 0.377 Sensitivity PknotsRG: 0.440 RSpredict(20): 0.241 Positive Predictive Value PknotsRG: 0.510 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs RNAshapes Matthews Correlation Coefficient PknotsRG: 0.474 RNAshapes: 0.367 Sensitivity PknotsRG: 0.440 RNAshapes: 0.285 Positive Predictive Value PknotsRG: 0.510 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs RNASLOpt Matthews Correlation Coefficient PknotsRG: 0.474 RNASLOpt: 0.364 Sensitivity PknotsRG: 0.440 RNASLOpt: 0.261 Positive Predictive Value PknotsRG: 0.510 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Multilign(20) Matthews Correlation Coefficient PknotsRG: 0.474 Multilign(20): 0.350 Sensitivity PknotsRG: 0.440 Multilign(20): 0.161 Positive Predictive Value PknotsRG: 0.510 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Murlet(20) Matthews Correlation Coefficient PknotsRG: 0.474 Murlet(20): 0.321 Sensitivity PknotsRG: 0.440 Murlet(20): 0.131 Positive Predictive Value PknotsRG: 0.510 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs RNAwolf Matthews Correlation Coefficient PknotsRG: 0.474 RNAwolf: 0.310 Sensitivity PknotsRG: 0.440 RNAwolf: 0.261 Positive Predictive Value PknotsRG: 0.510 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs RSpredict(seed) Matthews Correlation Coefficient PknotsRG: 0.474 RSpredict(seed): 0.295 Sensitivity PknotsRG: 0.440 RSpredict(seed): 0.146 Positive Predictive Value PknotsRG: 0.510 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs CMfinder(20) Matthews Correlation Coefficient PknotsRG: 0.474 CMfinder(20): 0.292 Sensitivity PknotsRG: 0.440 CMfinder(20): 0.107 Positive Predictive Value PknotsRG: 0.510 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Vsfold4 Matthews Correlation Coefficient PknotsRG: 0.474 Vsfold4: 0.270 Sensitivity PknotsRG: 0.440 Vsfold4: 0.198 Positive Predictive Value PknotsRG: 0.510 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Vsfold5 Matthews Correlation Coefficient PknotsRG: 0.474 Vsfold5: 0.260 Sensitivity PknotsRG: 0.440 Vsfold5: 0.195 Positive Predictive Value PknotsRG: 0.510 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs RNASampler(20) Matthews Correlation Coefficient PknotsRG: 0.474 RNASampler(20): 0.246 Sensitivity PknotsRG: 0.440 RNASampler(20): 0.069 Positive Predictive Value PknotsRG: 0.510 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs HotKnots Matthews Correlation Coefficient PknotsRG: 0.474 HotKnots: 0.212 Sensitivity PknotsRG: 0.440 HotKnots: 0.069 Positive Predictive Value PknotsRG: 0.510 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Mastr(20) Matthews Correlation Coefficient PknotsRG: 0.474 Mastr(20): 0.187 Sensitivity PknotsRG: 0.440 Mastr(20): 0.044 Positive Predictive Value PknotsRG: 0.510 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Cylofold Matthews Correlation Coefficient PknotsRG: 0.474 Cylofold: 0.178 Sensitivity PknotsRG: 0.440 Cylofold: 0.053 Positive Predictive Value PknotsRG: 0.510 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Pknots Matthews Correlation Coefficient PknotsRG: 0.474 Pknots: 0.165 Sensitivity PknotsRG: 0.440 Pknots: 0.041 Positive Predictive Value PknotsRG: 0.510 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Alterna Matthews Correlation Coefficient PknotsRG: 0.474 Alterna: 0.145 Sensitivity PknotsRG: 0.440 Alterna: 0.036 Positive Predictive Value PknotsRG: 0.510 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs MCFold Matthews Correlation Coefficient PknotsRG: 0.474 MCFold: 0.138 Sensitivity PknotsRG: 0.440 MCFold: 0.044 Positive Predictive Value PknotsRG: 0.510 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs RDfolder Matthews Correlation Coefficient PknotsRG: 0.474 RDfolder: 0.138 Sensitivity PknotsRG: 0.440 RDfolder: 0.031 Positive Predictive Value PknotsRG: 0.510 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Murlet(seed) Matthews Correlation Coefficient PknotsRG: 0.474 Murlet(seed): 0.110 Sensitivity PknotsRG: 0.440 Murlet(seed): 0.015 Positive Predictive Value PknotsRG: 0.510 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs CMfinder(seed) Matthews Correlation Coefficient PknotsRG: 0.474 CMfinder(seed): 0.111 Sensitivity PknotsRG: 0.440 CMfinder(seed): 0.016 Positive Predictive Value PknotsRG: 0.510 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs TurboFold(seed) Matthews Correlation Coefficient PknotsRG: 0.474 TurboFold(seed): 0.106 Sensitivity PknotsRG: 0.440 TurboFold(seed): 0.014 Positive Predictive Value PknotsRG: 0.510 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs PPfold(seed) Matthews Correlation Coefficient PknotsRG: 0.474 PPfold(seed): 0.097 Sensitivity PknotsRG: 0.440 PPfold(seed): 0.012 Positive Predictive Value PknotsRG: 0.510 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Carnac(seed) Matthews Correlation Coefficient PknotsRG: 0.474 Carnac(seed): 0.093 Sensitivity PknotsRG: 0.440 Carnac(seed): 0.010 Positive Predictive Value PknotsRG: 0.510 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs RNASampler(seed) Matthews Correlation Coefficient PknotsRG: 0.474 RNASampler(seed): 0.088 Sensitivity PknotsRG: 0.440 RNASampler(seed): 0.009 Positive Predictive Value PknotsRG: 0.510 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Mastr(seed) Matthews Correlation Coefficient PknotsRG: 0.474 Mastr(seed): 0.072 Sensitivity PknotsRG: 0.440 Mastr(seed): 0.006 Positive Predictive Value PknotsRG: 0.510 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs NanoFolder Matthews Correlation Coefficient PknotsRG: 0.474 NanoFolder: 0.068 Sensitivity PknotsRG: 0.440 NanoFolder: 0.027 Positive Predictive Value PknotsRG: 0.510 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PknotsRG vs Multilign(seed) Matthews Correlation Coefficient PknotsRG: 0.474 Multilign(seed): 0.059 Sensitivity PknotsRG: 0.440 Multilign(seed): 0.005 Positive Predictive Value PknotsRG: 0.510 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
CRWrnafold	1242 ContextFold vs CRWrnafold Matthews Correlation Coefficient ContextFold: 0.754 CRWrnafold: 0.430 Sensitivity ContextFold: 0.717 CRWrnafold: 0.379 Positive Predictive Value ContextFold: 0.794 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs CRWrnafold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 CRWrnafold: 0.430 Sensitivity PETfold_pre2.0(seed): 0.667 CRWrnafold: 0.379 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs CRWrnafold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 CRWrnafold: 0.430 Sensitivity CentroidAlifold(seed): 0.414 CRWrnafold: 0.379 Positive Predictive Value CentroidAlifold(seed): 0.901 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs CRWrnafold Matthews Correlation Coefficient IPknot: 0.607 CRWrnafold: 0.430 Sensitivity IPknot: 0.551 CRWrnafold: 0.379 Positive Predictive Value IPknot: 0.670 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs CRWrnafold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 CRWrnafold: 0.430 Sensitivity PETfold_pre2.0(20): 0.410 CRWrnafold: 0.379 Positive Predictive Value PETfold_pre2.0(20): 0.807 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs CRWrnafold Matthews Correlation Coefficient CentroidFold: 0.571 CRWrnafold: 0.430 Sensitivity CentroidFold: 0.515 CRWrnafold: 0.379 Positive Predictive Value CentroidFold: 0.633 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs CRWrnafold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 CRWrnafold: 0.430 Sensitivity CentroidAlifold(20): 0.369 CRWrnafold: 0.379 Positive Predictive Value CentroidAlifold(20): 0.891 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs CRWrnafold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 CRWrnafold: 0.430 Sensitivity CentroidHomfold‑LAST: 0.359 CRWrnafold: 0.379 Positive Predictive Value CentroidHomfold‑LAST: 0.874 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs CRWrnafold Matthews Correlation Coefficient Contrafold: 0.556 CRWrnafold: 0.430 Sensitivity Contrafold: 0.542 CRWrnafold: 0.379 Positive Predictive Value Contrafold: 0.571 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs CRWrnafold Matthews Correlation Coefficient MXScarna(seed): 0.536 CRWrnafold: 0.430 Sensitivity MXScarna(seed): 0.382 CRWrnafold: 0.379 Positive Predictive Value MXScarna(seed): 0.753 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs CRWrnafold Matthews Correlation Coefficient RNAalifold(20): 0.532 CRWrnafold: 0.430 Sensitivity RNAalifold(20): 0.359 CRWrnafold: 0.379 Positive Predictive Value RNAalifold(20): 0.787 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs CRWrnafold Matthews Correlation Coefficient Sfold: 0.527 CRWrnafold: 0.430 Sensitivity Sfold: 0.477 CRWrnafold: 0.379 Positive Predictive Value Sfold: 0.582 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs CRWrnafold Matthews Correlation Coefficient RNAalifold(seed): 0.523 CRWrnafold: 0.430 Sensitivity RNAalifold(seed): 0.328 CRWrnafold: 0.379 Positive Predictive Value RNAalifold(seed): 0.835 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs CRWrnafold Matthews Correlation Coefficient MaxExpect: 0.516 CRWrnafold: 0.430 Sensitivity MaxExpect: 0.505 CRWrnafold: 0.379 Positive Predictive Value MaxExpect: 0.528 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs CRWrnafold Matthews Correlation Coefficient ProbKnot: 0.512 CRWrnafold: 0.430 Sensitivity ProbKnot: 0.508 CRWrnafold: 0.379 Positive Predictive Value ProbKnot: 0.517 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs CRWrnafold Matthews Correlation Coefficient MXScarna(20): 0.500 CRWrnafold: 0.430 Sensitivity MXScarna(20): 0.353 CRWrnafold: 0.379 Positive Predictive Value MXScarna(20): 0.710 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs CRWrnafold Matthews Correlation Coefficient UNAFold: 0.494 CRWrnafold: 0.430 Sensitivity UNAFold: 0.491 CRWrnafold: 0.379 Positive Predictive Value UNAFold: 0.498 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs CRWrnafold Matthews Correlation Coefficient Fold: 0.493 CRWrnafold: 0.430 Sensitivity Fold: 0.496 CRWrnafold: 0.379 Positive Predictive Value Fold: 0.490 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs CRWrnafold Matthews Correlation Coefficient RNAfold: 0.485 CRWrnafold: 0.430 Sensitivity RNAfold: 0.486 CRWrnafold: 0.379 Positive Predictive Value RNAfold: 0.485 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs CRWrnafold Matthews Correlation Coefficient PknotsRG: 0.474 CRWrnafold: 0.430 Sensitivity PknotsRG: 0.440 CRWrnafold: 0.379 Positive Predictive Value PknotsRG: 0.510 CRWrnafold: 0.490 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ CRWrnafold vs RNAsubopt Matthews Correlation Coefficient CRWrnafold: 0.430 RNAsubopt: 0.422 Sensitivity CRWrnafold: 0.379 RNAsubopt: 0.344 Positive Predictive Value CRWrnafold: 0.490 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs TurboFold(20) Matthews Correlation Coefficient CRWrnafold: 0.430 TurboFold(20): 0.419 Sensitivity CRWrnafold: 0.379 TurboFold(20): 0.210 Positive Predictive Value CRWrnafold: 0.490 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs PPfold(20) Matthews Correlation Coefficient CRWrnafold: 0.430 PPfold(20): 0.416 Sensitivity CRWrnafold: 0.379 PPfold(20): 0.197 Positive Predictive Value CRWrnafold: 0.490 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Afold Matthews Correlation Coefficient CRWrnafold: 0.430 Afold: 0.408 Sensitivity CRWrnafold: 0.379 Afold: 0.343 Positive Predictive Value CRWrnafold: 0.490 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Carnac(20) Matthews Correlation Coefficient CRWrnafold: 0.430 Carnac(20): 0.401 Sensitivity CRWrnafold: 0.379 Carnac(20): 0.180 Positive Predictive Value CRWrnafold: 0.490 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs McQFold Matthews Correlation Coefficient CRWrnafold: 0.430 McQFold: 0.389 Sensitivity CRWrnafold: 0.379 McQFold: 0.308 Positive Predictive Value CRWrnafold: 0.490 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs RSpredict(20) Matthews Correlation Coefficient CRWrnafold: 0.430 RSpredict(20): 0.377 Sensitivity CRWrnafold: 0.379 RSpredict(20): 0.241 Positive Predictive Value CRWrnafold: 0.490 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs RNAshapes Matthews Correlation Coefficient CRWrnafold: 0.430 RNAshapes: 0.367 Sensitivity CRWrnafold: 0.379 RNAshapes: 0.285 Positive Predictive Value CRWrnafold: 0.490 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs RNASLOpt Matthews Correlation Coefficient CRWrnafold: 0.430 RNASLOpt: 0.364 Sensitivity CRWrnafold: 0.379 RNASLOpt: 0.261 Positive Predictive Value CRWrnafold: 0.490 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Multilign(20) Matthews Correlation Coefficient CRWrnafold: 0.430 Multilign(20): 0.350 Sensitivity CRWrnafold: 0.379 Multilign(20): 0.161 Positive Predictive Value CRWrnafold: 0.490 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Murlet(20) Matthews Correlation Coefficient CRWrnafold: 0.430 Murlet(20): 0.321 Sensitivity CRWrnafold: 0.379 Murlet(20): 0.131 Positive Predictive Value CRWrnafold: 0.490 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs RNAwolf Matthews Correlation Coefficient CRWrnafold: 0.430 RNAwolf: 0.310 Sensitivity CRWrnafold: 0.379 RNAwolf: 0.261 Positive Predictive Value CRWrnafold: 0.490 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs RSpredict(seed) Matthews Correlation Coefficient CRWrnafold: 0.430 RSpredict(seed): 0.295 Sensitivity CRWrnafold: 0.379 RSpredict(seed): 0.146 Positive Predictive Value CRWrnafold: 0.490 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs CMfinder(20) Matthews Correlation Coefficient CRWrnafold: 0.430 CMfinder(20): 0.292 Sensitivity CRWrnafold: 0.379 CMfinder(20): 0.107 Positive Predictive Value CRWrnafold: 0.490 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Vsfold4 Matthews Correlation Coefficient CRWrnafold: 0.430 Vsfold4: 0.270 Sensitivity CRWrnafold: 0.379 Vsfold4: 0.198 Positive Predictive Value CRWrnafold: 0.490 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Vsfold5 Matthews Correlation Coefficient CRWrnafold: 0.430 Vsfold5: 0.260 Sensitivity CRWrnafold: 0.379 Vsfold5: 0.195 Positive Predictive Value CRWrnafold: 0.490 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs RNASampler(20) Matthews Correlation Coefficient CRWrnafold: 0.430 RNASampler(20): 0.246 Sensitivity CRWrnafold: 0.379 RNASampler(20): 0.069 Positive Predictive Value CRWrnafold: 0.490 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs HotKnots Matthews Correlation Coefficient CRWrnafold: 0.430 HotKnots: 0.212 Sensitivity CRWrnafold: 0.379 HotKnots: 0.069 Positive Predictive Value CRWrnafold: 0.490 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Mastr(20) Matthews Correlation Coefficient CRWrnafold: 0.430 Mastr(20): 0.187 Sensitivity CRWrnafold: 0.379 Mastr(20): 0.044 Positive Predictive Value CRWrnafold: 0.490 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Cylofold Matthews Correlation Coefficient CRWrnafold: 0.430 Cylofold: 0.178 Sensitivity CRWrnafold: 0.379 Cylofold: 0.053 Positive Predictive Value CRWrnafold: 0.490 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Pknots Matthews Correlation Coefficient CRWrnafold: 0.430 Pknots: 0.165 Sensitivity CRWrnafold: 0.379 Pknots: 0.041 Positive Predictive Value CRWrnafold: 0.490 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Alterna Matthews Correlation Coefficient CRWrnafold: 0.430 Alterna: 0.145 Sensitivity CRWrnafold: 0.379 Alterna: 0.036 Positive Predictive Value CRWrnafold: 0.490 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs MCFold Matthews Correlation Coefficient CRWrnafold: 0.430 MCFold: 0.138 Sensitivity CRWrnafold: 0.379 MCFold: 0.044 Positive Predictive Value CRWrnafold: 0.490 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs RDfolder Matthews Correlation Coefficient CRWrnafold: 0.430 RDfolder: 0.138 Sensitivity CRWrnafold: 0.379 RDfolder: 0.031 Positive Predictive Value CRWrnafold: 0.490 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Murlet(seed) Matthews Correlation Coefficient CRWrnafold: 0.430 Murlet(seed): 0.110 Sensitivity CRWrnafold: 0.379 Murlet(seed): 0.015 Positive Predictive Value CRWrnafold: 0.490 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs CMfinder(seed) Matthews Correlation Coefficient CRWrnafold: 0.430 CMfinder(seed): 0.111 Sensitivity CRWrnafold: 0.379 CMfinder(seed): 0.016 Positive Predictive Value CRWrnafold: 0.490 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs TurboFold(seed) Matthews Correlation Coefficient CRWrnafold: 0.430 TurboFold(seed): 0.106 Sensitivity CRWrnafold: 0.379 TurboFold(seed): 0.014 Positive Predictive Value CRWrnafold: 0.490 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs PPfold(seed) Matthews Correlation Coefficient CRWrnafold: 0.430 PPfold(seed): 0.097 Sensitivity CRWrnafold: 0.379 PPfold(seed): 0.012 Positive Predictive Value CRWrnafold: 0.490 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Carnac(seed) Matthews Correlation Coefficient CRWrnafold: 0.430 Carnac(seed): 0.093 Sensitivity CRWrnafold: 0.379 Carnac(seed): 0.010 Positive Predictive Value CRWrnafold: 0.490 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs RNASampler(seed) Matthews Correlation Coefficient CRWrnafold: 0.430 RNASampler(seed): 0.088 Sensitivity CRWrnafold: 0.379 RNASampler(seed): 0.009 Positive Predictive Value CRWrnafold: 0.490 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Mastr(seed) Matthews Correlation Coefficient CRWrnafold: 0.430 Mastr(seed): 0.072 Sensitivity CRWrnafold: 0.379 Mastr(seed): 0.006 Positive Predictive Value CRWrnafold: 0.490 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs NanoFolder Matthews Correlation Coefficient CRWrnafold: 0.430 NanoFolder: 0.068 Sensitivity CRWrnafold: 0.379 NanoFolder: 0.027 Positive Predictive Value CRWrnafold: 0.490 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CRWrnafold vs Multilign(seed) Matthews Correlation Coefficient CRWrnafold: 0.430 Multilign(seed): 0.059 Sensitivity CRWrnafold: 0.379 Multilign(seed): 0.005 Positive Predictive Value CRWrnafold: 0.490 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
RNAsubopt	1242 ContextFold vs RNAsubopt Matthews Correlation Coefficient ContextFold: 0.754 RNAsubopt: 0.422 Sensitivity ContextFold: 0.717 RNAsubopt: 0.344 Positive Predictive Value ContextFold: 0.794 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs RNAsubopt Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RNAsubopt: 0.422 Sensitivity PETfold_pre2.0(seed): 0.667 RNAsubopt: 0.344 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs RNAsubopt Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RNAsubopt: 0.422 Sensitivity CentroidAlifold(seed): 0.414 RNAsubopt: 0.344 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs RNAsubopt Matthews Correlation Coefficient IPknot: 0.607 RNAsubopt: 0.422 Sensitivity IPknot: 0.551 RNAsubopt: 0.344 Positive Predictive Value IPknot: 0.670 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs RNAsubopt Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RNAsubopt: 0.422 Sensitivity PETfold_pre2.0(20): 0.410 RNAsubopt: 0.344 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs RNAsubopt Matthews Correlation Coefficient CentroidFold: 0.571 RNAsubopt: 0.422 Sensitivity CentroidFold: 0.515 RNAsubopt: 0.344 Positive Predictive Value CentroidFold: 0.633 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs RNAsubopt Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RNAsubopt: 0.422 Sensitivity CentroidAlifold(20): 0.369 RNAsubopt: 0.344 Positive Predictive Value CentroidAlifold(20): 0.891 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs RNAsubopt Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RNAsubopt: 0.422 Sensitivity CentroidHomfold‑LAST: 0.359 RNAsubopt: 0.344 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs RNAsubopt Matthews Correlation Coefficient Contrafold: 0.556 RNAsubopt: 0.422 Sensitivity Contrafold: 0.542 RNAsubopt: 0.344 Positive Predictive Value Contrafold: 0.571 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs RNAsubopt Matthews Correlation Coefficient MXScarna(seed): 0.536 RNAsubopt: 0.422 Sensitivity MXScarna(seed): 0.382 RNAsubopt: 0.344 Positive Predictive Value MXScarna(seed): 0.753 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs RNAsubopt Matthews Correlation Coefficient RNAalifold(20): 0.532 RNAsubopt: 0.422 Sensitivity RNAalifold(20): 0.359 RNAsubopt: 0.344 Positive Predictive Value RNAalifold(20): 0.787 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs RNAsubopt Matthews Correlation Coefficient Sfold: 0.527 RNAsubopt: 0.422 Sensitivity Sfold: 0.477 RNAsubopt: 0.344 Positive Predictive Value Sfold: 0.582 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs RNAsubopt Matthews Correlation Coefficient RNAalifold(seed): 0.523 RNAsubopt: 0.422 Sensitivity RNAalifold(seed): 0.328 RNAsubopt: 0.344 Positive Predictive Value RNAalifold(seed): 0.835 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs RNAsubopt Matthews Correlation Coefficient MaxExpect: 0.516 RNAsubopt: 0.422 Sensitivity MaxExpect: 0.505 RNAsubopt: 0.344 Positive Predictive Value MaxExpect: 0.528 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs RNAsubopt Matthews Correlation Coefficient ProbKnot: 0.512 RNAsubopt: 0.422 Sensitivity ProbKnot: 0.508 RNAsubopt: 0.344 Positive Predictive Value ProbKnot: 0.517 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs RNAsubopt Matthews Correlation Coefficient MXScarna(20): 0.500 RNAsubopt: 0.422 Sensitivity MXScarna(20): 0.353 RNAsubopt: 0.344 Positive Predictive Value MXScarna(20): 0.710 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs RNAsubopt Matthews Correlation Coefficient UNAFold: 0.494 RNAsubopt: 0.422 Sensitivity UNAFold: 0.491 RNAsubopt: 0.344 Positive Predictive Value UNAFold: 0.498 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs RNAsubopt Matthews Correlation Coefficient Fold: 0.493 RNAsubopt: 0.422 Sensitivity Fold: 0.496 RNAsubopt: 0.344 Positive Predictive Value Fold: 0.490 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs RNAsubopt Matthews Correlation Coefficient RNAfold: 0.485 RNAsubopt: 0.422 Sensitivity RNAfold: 0.486 RNAsubopt: 0.344 Positive Predictive Value RNAfold: 0.485 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs RNAsubopt Matthews Correlation Coefficient PknotsRG: 0.474 RNAsubopt: 0.422 Sensitivity PknotsRG: 0.440 RNAsubopt: 0.344 Positive Predictive Value PknotsRG: 0.510 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs RNAsubopt Matthews Correlation Coefficient CRWrnafold: 0.430 RNAsubopt: 0.422 Sensitivity CRWrnafold: 0.379 RNAsubopt: 0.344 Positive Predictive Value CRWrnafold: 0.490 RNAsubopt: 0.519 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ RNAsubopt vs TurboFold(20) Matthews Correlation Coefficient RNAsubopt: 0.422 TurboFold(20): 0.419 Sensitivity RNAsubopt: 0.344 TurboFold(20): 0.210 Positive Predictive Value RNAsubopt: 0.519 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 1.80472700427e-05	+ RNAsubopt vs PPfold(20) Matthews Correlation Coefficient RNAsubopt: 0.422 PPfold(20): 0.416 Sensitivity RNAsubopt: 0.344 PPfold(20): 0.197 Positive Predictive Value RNAsubopt: 0.519 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 4.48494289621e-08	+ RNAsubopt vs Afold Matthews Correlation Coefficient RNAsubopt: 0.422 Afold: 0.408 Sensitivity RNAsubopt: 0.344 Afold: 0.343 Positive Predictive Value RNAsubopt: 0.519 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Carnac(20) Matthews Correlation Coefficient RNAsubopt: 0.422 Carnac(20): 0.401 Sensitivity RNAsubopt: 0.344 Carnac(20): 0.180 Positive Predictive Value RNAsubopt: 0.519 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs McQFold Matthews Correlation Coefficient RNAsubopt: 0.422 McQFold: 0.389 Sensitivity RNAsubopt: 0.344 McQFold: 0.308 Positive Predictive Value RNAsubopt: 0.519 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs RSpredict(20) Matthews Correlation Coefficient RNAsubopt: 0.422 RSpredict(20): 0.377 Sensitivity RNAsubopt: 0.344 RSpredict(20): 0.241 Positive Predictive Value RNAsubopt: 0.519 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs RNAshapes Matthews Correlation Coefficient RNAsubopt: 0.422 RNAshapes: 0.367 Sensitivity RNAsubopt: 0.344 RNAshapes: 0.285 Positive Predictive Value RNAsubopt: 0.519 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs RNASLOpt Matthews Correlation Coefficient RNAsubopt: 0.422 RNASLOpt: 0.364 Sensitivity RNAsubopt: 0.344 RNASLOpt: 0.261 Positive Predictive Value RNAsubopt: 0.519 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Multilign(20) Matthews Correlation Coefficient RNAsubopt: 0.422 Multilign(20): 0.350 Sensitivity RNAsubopt: 0.344 Multilign(20): 0.161 Positive Predictive Value RNAsubopt: 0.519 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Murlet(20) Matthews Correlation Coefficient RNAsubopt: 0.422 Murlet(20): 0.321 Sensitivity RNAsubopt: 0.344 Murlet(20): 0.131 Positive Predictive Value RNAsubopt: 0.519 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs RNAwolf Matthews Correlation Coefficient RNAsubopt: 0.422 RNAwolf: 0.310 Sensitivity RNAsubopt: 0.344 RNAwolf: 0.261 Positive Predictive Value RNAsubopt: 0.519 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs RSpredict(seed) Matthews Correlation Coefficient RNAsubopt: 0.422 RSpredict(seed): 0.295 Sensitivity RNAsubopt: 0.344 RSpredict(seed): 0.146 Positive Predictive Value RNAsubopt: 0.519 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs CMfinder(20) Matthews Correlation Coefficient RNAsubopt: 0.422 CMfinder(20): 0.292 Sensitivity RNAsubopt: 0.344 CMfinder(20): 0.107 Positive Predictive Value RNAsubopt: 0.519 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Vsfold4 Matthews Correlation Coefficient RNAsubopt: 0.422 Vsfold4: 0.270 Sensitivity RNAsubopt: 0.344 Vsfold4: 0.198 Positive Predictive Value RNAsubopt: 0.519 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Vsfold5 Matthews Correlation Coefficient RNAsubopt: 0.422 Vsfold5: 0.260 Sensitivity RNAsubopt: 0.344 Vsfold5: 0.195 Positive Predictive Value RNAsubopt: 0.519 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs RNASampler(20) Matthews Correlation Coefficient RNAsubopt: 0.422 RNASampler(20): 0.246 Sensitivity RNAsubopt: 0.344 RNASampler(20): 0.069 Positive Predictive Value RNAsubopt: 0.519 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs HotKnots Matthews Correlation Coefficient RNAsubopt: 0.422 HotKnots: 0.212 Sensitivity RNAsubopt: 0.344 HotKnots: 0.069 Positive Predictive Value RNAsubopt: 0.519 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Mastr(20) Matthews Correlation Coefficient RNAsubopt: 0.422 Mastr(20): 0.187 Sensitivity RNAsubopt: 0.344 Mastr(20): 0.044 Positive Predictive Value RNAsubopt: 0.519 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Cylofold Matthews Correlation Coefficient RNAsubopt: 0.422 Cylofold: 0.178 Sensitivity RNAsubopt: 0.344 Cylofold: 0.053 Positive Predictive Value RNAsubopt: 0.519 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Pknots Matthews Correlation Coefficient RNAsubopt: 0.422 Pknots: 0.165 Sensitivity RNAsubopt: 0.344 Pknots: 0.041 Positive Predictive Value RNAsubopt: 0.519 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Alterna Matthews Correlation Coefficient RNAsubopt: 0.422 Alterna: 0.145 Sensitivity RNAsubopt: 0.344 Alterna: 0.036 Positive Predictive Value RNAsubopt: 0.519 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs MCFold Matthews Correlation Coefficient RNAsubopt: 0.422 MCFold: 0.138 Sensitivity RNAsubopt: 0.344 MCFold: 0.044 Positive Predictive Value RNAsubopt: 0.519 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs RDfolder Matthews Correlation Coefficient RNAsubopt: 0.422 RDfolder: 0.138 Sensitivity RNAsubopt: 0.344 RDfolder: 0.031 Positive Predictive Value RNAsubopt: 0.519 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Murlet(seed) Matthews Correlation Coefficient RNAsubopt: 0.422 Murlet(seed): 0.110 Sensitivity RNAsubopt: 0.344 Murlet(seed): 0.015 Positive Predictive Value RNAsubopt: 0.519 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs CMfinder(seed) Matthews Correlation Coefficient RNAsubopt: 0.422 CMfinder(seed): 0.111 Sensitivity RNAsubopt: 0.344 CMfinder(seed): 0.016 Positive Predictive Value RNAsubopt: 0.519 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs TurboFold(seed) Matthews Correlation Coefficient RNAsubopt: 0.422 TurboFold(seed): 0.106 Sensitivity RNAsubopt: 0.344 TurboFold(seed): 0.014 Positive Predictive Value RNAsubopt: 0.519 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs PPfold(seed) Matthews Correlation Coefficient RNAsubopt: 0.422 PPfold(seed): 0.097 Sensitivity RNAsubopt: 0.344 PPfold(seed): 0.012 Positive Predictive Value RNAsubopt: 0.519 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Carnac(seed) Matthews Correlation Coefficient RNAsubopt: 0.422 Carnac(seed): 0.093 Sensitivity RNAsubopt: 0.344 Carnac(seed): 0.010 Positive Predictive Value RNAsubopt: 0.519 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs RNASampler(seed) Matthews Correlation Coefficient RNAsubopt: 0.422 RNASampler(seed): 0.088 Sensitivity RNAsubopt: 0.344 RNASampler(seed): 0.009 Positive Predictive Value RNAsubopt: 0.519 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Mastr(seed) Matthews Correlation Coefficient RNAsubopt: 0.422 Mastr(seed): 0.072 Sensitivity RNAsubopt: 0.344 Mastr(seed): 0.006 Positive Predictive Value RNAsubopt: 0.519 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs NanoFolder Matthews Correlation Coefficient RNAsubopt: 0.422 NanoFolder: 0.068 Sensitivity RNAsubopt: 0.344 NanoFolder: 0.027 Positive Predictive Value RNAsubopt: 0.519 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAsubopt vs Multilign(seed) Matthews Correlation Coefficient RNAsubopt: 0.422 Multilign(seed): 0.059 Sensitivity RNAsubopt: 0.344 Multilign(seed): 0.005 Positive Predictive Value RNAsubopt: 0.519 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
TurboFold(20)	1242 ContextFold vs TurboFold(20) Matthews Correlation Coefficient ContextFold: 0.754 TurboFold(20): 0.419 Sensitivity ContextFold: 0.717 TurboFold(20): 0.210 Positive Predictive Value ContextFold: 0.794 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs TurboFold(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 TurboFold(20): 0.419 Sensitivity PETfold_pre2.0(seed): 0.667 TurboFold(20): 0.210 Positive Predictive Value PETfold_pre2.0(seed): 0.814 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs TurboFold(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 TurboFold(20): 0.419 Sensitivity CentroidAlifold(seed): 0.414 TurboFold(20): 0.210 Positive Predictive Value CentroidAlifold(seed): 0.901 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs TurboFold(20) Matthews Correlation Coefficient IPknot: 0.607 TurboFold(20): 0.419 Sensitivity IPknot: 0.551 TurboFold(20): 0.210 Positive Predictive Value IPknot: 0.670 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs TurboFold(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 TurboFold(20): 0.419 Sensitivity PETfold_pre2.0(20): 0.410 TurboFold(20): 0.210 Positive Predictive Value PETfold_pre2.0(20): 0.807 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs TurboFold(20) Matthews Correlation Coefficient CentroidFold: 0.571 TurboFold(20): 0.419 Sensitivity CentroidFold: 0.515 TurboFold(20): 0.210 Positive Predictive Value CentroidFold: 0.633 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs TurboFold(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 TurboFold(20): 0.419 Sensitivity CentroidAlifold(20): 0.369 TurboFold(20): 0.210 Positive Predictive Value CentroidAlifold(20): 0.891 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs TurboFold(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 TurboFold(20): 0.419 Sensitivity CentroidHomfold‑LAST: 0.359 TurboFold(20): 0.210 Positive Predictive Value CentroidHomfold‑LAST: 0.874 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs TurboFold(20) Matthews Correlation Coefficient Contrafold: 0.556 TurboFold(20): 0.419 Sensitivity Contrafold: 0.542 TurboFold(20): 0.210 Positive Predictive Value Contrafold: 0.571 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs TurboFold(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 TurboFold(20): 0.419 Sensitivity MXScarna(seed): 0.382 TurboFold(20): 0.210 Positive Predictive Value MXScarna(seed): 0.753 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs TurboFold(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 TurboFold(20): 0.419 Sensitivity RNAalifold(20): 0.359 TurboFold(20): 0.210 Positive Predictive Value RNAalifold(20): 0.787 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs TurboFold(20) Matthews Correlation Coefficient Sfold: 0.527 TurboFold(20): 0.419 Sensitivity Sfold: 0.477 TurboFold(20): 0.210 Positive Predictive Value Sfold: 0.582 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs TurboFold(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 TurboFold(20): 0.419 Sensitivity RNAalifold(seed): 0.328 TurboFold(20): 0.210 Positive Predictive Value RNAalifold(seed): 0.835 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs TurboFold(20) Matthews Correlation Coefficient MaxExpect: 0.516 TurboFold(20): 0.419 Sensitivity MaxExpect: 0.505 TurboFold(20): 0.210 Positive Predictive Value MaxExpect: 0.528 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs TurboFold(20) Matthews Correlation Coefficient ProbKnot: 0.512 TurboFold(20): 0.419 Sensitivity ProbKnot: 0.508 TurboFold(20): 0.210 Positive Predictive Value ProbKnot: 0.517 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs TurboFold(20) Matthews Correlation Coefficient MXScarna(20): 0.500 TurboFold(20): 0.419 Sensitivity MXScarna(20): 0.353 TurboFold(20): 0.210 Positive Predictive Value MXScarna(20): 0.710 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs TurboFold(20) Matthews Correlation Coefficient UNAFold: 0.494 TurboFold(20): 0.419 Sensitivity UNAFold: 0.491 TurboFold(20): 0.210 Positive Predictive Value UNAFold: 0.498 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs TurboFold(20) Matthews Correlation Coefficient Fold: 0.493 TurboFold(20): 0.419 Sensitivity Fold: 0.496 TurboFold(20): 0.210 Positive Predictive Value Fold: 0.490 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs TurboFold(20) Matthews Correlation Coefficient RNAfold: 0.485 TurboFold(20): 0.419 Sensitivity RNAfold: 0.486 TurboFold(20): 0.210 Positive Predictive Value RNAfold: 0.485 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs TurboFold(20) Matthews Correlation Coefficient PknotsRG: 0.474 TurboFold(20): 0.419 Sensitivity PknotsRG: 0.440 TurboFold(20): 0.210 Positive Predictive Value PknotsRG: 0.510 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs TurboFold(20) Matthews Correlation Coefficient CRWrnafold: 0.430 TurboFold(20): 0.419 Sensitivity CRWrnafold: 0.379 TurboFold(20): 0.210 Positive Predictive Value CRWrnafold: 0.490 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs TurboFold(20) Matthews Correlation Coefficient RNAsubopt: 0.422 TurboFold(20): 0.419 Sensitivity RNAsubopt: 0.344 TurboFold(20): 0.210 Positive Predictive Value RNAsubopt: 0.519 TurboFold(20): 0.837 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 1.80472700427e-05		+ TurboFold(20) vs PPfold(20) Matthews Correlation Coefficient TurboFold(20): 0.419 PPfold(20): 0.416 Sensitivity TurboFold(20): 0.210 PPfold(20): 0.197 Positive Predictive Value TurboFold(20): 0.837 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.85233844192e-08	+ TurboFold(20) vs Afold Matthews Correlation Coefficient TurboFold(20): 0.419 Afold: 0.408 Sensitivity TurboFold(20): 0.210 Afold: 0.343 Positive Predictive Value TurboFold(20): 0.837 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Carnac(20) Matthews Correlation Coefficient TurboFold(20): 0.419 Carnac(20): 0.401 Sensitivity TurboFold(20): 0.210 Carnac(20): 0.180 Positive Predictive Value TurboFold(20): 0.837 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs McQFold Matthews Correlation Coefficient TurboFold(20): 0.419 McQFold: 0.389 Sensitivity TurboFold(20): 0.210 McQFold: 0.308 Positive Predictive Value TurboFold(20): 0.837 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs RSpredict(20) Matthews Correlation Coefficient TurboFold(20): 0.419 RSpredict(20): 0.377 Sensitivity TurboFold(20): 0.210 RSpredict(20): 0.241 Positive Predictive Value TurboFold(20): 0.837 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs RNAshapes Matthews Correlation Coefficient TurboFold(20): 0.419 RNAshapes: 0.367 Sensitivity TurboFold(20): 0.210 RNAshapes: 0.285 Positive Predictive Value TurboFold(20): 0.837 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs RNASLOpt Matthews Correlation Coefficient TurboFold(20): 0.419 RNASLOpt: 0.364 Sensitivity TurboFold(20): 0.210 RNASLOpt: 0.261 Positive Predictive Value TurboFold(20): 0.837 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Multilign(20) Matthews Correlation Coefficient TurboFold(20): 0.419 Multilign(20): 0.350 Sensitivity TurboFold(20): 0.210 Multilign(20): 0.161 Positive Predictive Value TurboFold(20): 0.837 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Murlet(20) Matthews Correlation Coefficient TurboFold(20): 0.419 Murlet(20): 0.321 Sensitivity TurboFold(20): 0.210 Murlet(20): 0.131 Positive Predictive Value TurboFold(20): 0.837 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs RNAwolf Matthews Correlation Coefficient TurboFold(20): 0.419 RNAwolf: 0.310 Sensitivity TurboFold(20): 0.210 RNAwolf: 0.261 Positive Predictive Value TurboFold(20): 0.837 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs RSpredict(seed) Matthews Correlation Coefficient TurboFold(20): 0.419 RSpredict(seed): 0.295 Sensitivity TurboFold(20): 0.210 RSpredict(seed): 0.146 Positive Predictive Value TurboFold(20): 0.837 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs CMfinder(20) Matthews Correlation Coefficient TurboFold(20): 0.419 CMfinder(20): 0.292 Sensitivity TurboFold(20): 0.210 CMfinder(20): 0.107 Positive Predictive Value TurboFold(20): 0.837 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Vsfold4 Matthews Correlation Coefficient TurboFold(20): 0.419 Vsfold4: 0.270 Sensitivity TurboFold(20): 0.210 Vsfold4: 0.198 Positive Predictive Value TurboFold(20): 0.837 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Vsfold5 Matthews Correlation Coefficient TurboFold(20): 0.419 Vsfold5: 0.260 Sensitivity TurboFold(20): 0.210 Vsfold5: 0.195 Positive Predictive Value TurboFold(20): 0.837 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs RNASampler(20) Matthews Correlation Coefficient TurboFold(20): 0.419 RNASampler(20): 0.246 Sensitivity TurboFold(20): 0.210 RNASampler(20): 0.069 Positive Predictive Value TurboFold(20): 0.837 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs HotKnots Matthews Correlation Coefficient TurboFold(20): 0.419 HotKnots: 0.212 Sensitivity TurboFold(20): 0.210 HotKnots: 0.069 Positive Predictive Value TurboFold(20): 0.837 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Mastr(20) Matthews Correlation Coefficient TurboFold(20): 0.419 Mastr(20): 0.187 Sensitivity TurboFold(20): 0.210 Mastr(20): 0.044 Positive Predictive Value TurboFold(20): 0.837 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Cylofold Matthews Correlation Coefficient TurboFold(20): 0.419 Cylofold: 0.178 Sensitivity TurboFold(20): 0.210 Cylofold: 0.053 Positive Predictive Value TurboFold(20): 0.837 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Pknots Matthews Correlation Coefficient TurboFold(20): 0.419 Pknots: 0.165 Sensitivity TurboFold(20): 0.210 Pknots: 0.041 Positive Predictive Value TurboFold(20): 0.837 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Alterna Matthews Correlation Coefficient TurboFold(20): 0.419 Alterna: 0.145 Sensitivity TurboFold(20): 0.210 Alterna: 0.036 Positive Predictive Value TurboFold(20): 0.837 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs MCFold Matthews Correlation Coefficient TurboFold(20): 0.419 MCFold: 0.138 Sensitivity TurboFold(20): 0.210 MCFold: 0.044 Positive Predictive Value TurboFold(20): 0.837 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs RDfolder Matthews Correlation Coefficient TurboFold(20): 0.419 RDfolder: 0.138 Sensitivity TurboFold(20): 0.210 RDfolder: 0.031 Positive Predictive Value TurboFold(20): 0.837 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Murlet(seed) Matthews Correlation Coefficient TurboFold(20): 0.419 Murlet(seed): 0.110 Sensitivity TurboFold(20): 0.210 Murlet(seed): 0.015 Positive Predictive Value TurboFold(20): 0.837 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs CMfinder(seed) Matthews Correlation Coefficient TurboFold(20): 0.419 CMfinder(seed): 0.111 Sensitivity TurboFold(20): 0.210 CMfinder(seed): 0.016 Positive Predictive Value TurboFold(20): 0.837 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs TurboFold(seed) Matthews Correlation Coefficient TurboFold(20): 0.419 TurboFold(seed): 0.106 Sensitivity TurboFold(20): 0.210 TurboFold(seed): 0.014 Positive Predictive Value TurboFold(20): 0.837 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs PPfold(seed) Matthews Correlation Coefficient TurboFold(20): 0.419 PPfold(seed): 0.097 Sensitivity TurboFold(20): 0.210 PPfold(seed): 0.012 Positive Predictive Value TurboFold(20): 0.837 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Carnac(seed) Matthews Correlation Coefficient TurboFold(20): 0.419 Carnac(seed): 0.093 Sensitivity TurboFold(20): 0.210 Carnac(seed): 0.010 Positive Predictive Value TurboFold(20): 0.837 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs RNASampler(seed) Matthews Correlation Coefficient TurboFold(20): 0.419 RNASampler(seed): 0.088 Sensitivity TurboFold(20): 0.210 RNASampler(seed): 0.009 Positive Predictive Value TurboFold(20): 0.837 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Mastr(seed) Matthews Correlation Coefficient TurboFold(20): 0.419 Mastr(seed): 0.072 Sensitivity TurboFold(20): 0.210 Mastr(seed): 0.006 Positive Predictive Value TurboFold(20): 0.837 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs NanoFolder Matthews Correlation Coefficient TurboFold(20): 0.419 NanoFolder: 0.068 Sensitivity TurboFold(20): 0.210 NanoFolder: 0.027 Positive Predictive Value TurboFold(20): 0.837 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(20) vs Multilign(seed) Matthews Correlation Coefficient TurboFold(20): 0.419 Multilign(seed): 0.059 Sensitivity TurboFold(20): 0.210 Multilign(seed): 0.005 Positive Predictive Value TurboFold(20): 0.837 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
PPfold(20)	1242 ContextFold vs PPfold(20) Matthews Correlation Coefficient ContextFold: 0.754 PPfold(20): 0.416 Sensitivity ContextFold: 0.717 PPfold(20): 0.197 Positive Predictive Value ContextFold: 0.794 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs PPfold(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 PPfold(20): 0.416 Sensitivity PETfold_pre2.0(seed): 0.667 PPfold(20): 0.197 Positive Predictive Value PETfold_pre2.0(seed): 0.814 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs PPfold(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 PPfold(20): 0.416 Sensitivity CentroidAlifold(seed): 0.414 PPfold(20): 0.197 Positive Predictive Value CentroidAlifold(seed): 0.901 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs PPfold(20) Matthews Correlation Coefficient IPknot: 0.607 PPfold(20): 0.416 Sensitivity IPknot: 0.551 PPfold(20): 0.197 Positive Predictive Value IPknot: 0.670 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs PPfold(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 PPfold(20): 0.416 Sensitivity PETfold_pre2.0(20): 0.410 PPfold(20): 0.197 Positive Predictive Value PETfold_pre2.0(20): 0.807 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs PPfold(20) Matthews Correlation Coefficient CentroidFold: 0.571 PPfold(20): 0.416 Sensitivity CentroidFold: 0.515 PPfold(20): 0.197 Positive Predictive Value CentroidFold: 0.633 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs PPfold(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 PPfold(20): 0.416 Sensitivity CentroidAlifold(20): 0.369 PPfold(20): 0.197 Positive Predictive Value CentroidAlifold(20): 0.891 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs PPfold(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 PPfold(20): 0.416 Sensitivity CentroidHomfold‑LAST: 0.359 PPfold(20): 0.197 Positive Predictive Value CentroidHomfold‑LAST: 0.874 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs PPfold(20) Matthews Correlation Coefficient Contrafold: 0.556 PPfold(20): 0.416 Sensitivity Contrafold: 0.542 PPfold(20): 0.197 Positive Predictive Value Contrafold: 0.571 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs PPfold(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 PPfold(20): 0.416 Sensitivity MXScarna(seed): 0.382 PPfold(20): 0.197 Positive Predictive Value MXScarna(seed): 0.753 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs PPfold(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 PPfold(20): 0.416 Sensitivity RNAalifold(20): 0.359 PPfold(20): 0.197 Positive Predictive Value RNAalifold(20): 0.787 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs PPfold(20) Matthews Correlation Coefficient Sfold: 0.527 PPfold(20): 0.416 Sensitivity Sfold: 0.477 PPfold(20): 0.197 Positive Predictive Value Sfold: 0.582 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs PPfold(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 PPfold(20): 0.416 Sensitivity RNAalifold(seed): 0.328 PPfold(20): 0.197 Positive Predictive Value RNAalifold(seed): 0.835 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs PPfold(20) Matthews Correlation Coefficient MaxExpect: 0.516 PPfold(20): 0.416 Sensitivity MaxExpect: 0.505 PPfold(20): 0.197 Positive Predictive Value MaxExpect: 0.528 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs PPfold(20) Matthews Correlation Coefficient ProbKnot: 0.512 PPfold(20): 0.416 Sensitivity ProbKnot: 0.508 PPfold(20): 0.197 Positive Predictive Value ProbKnot: 0.517 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs PPfold(20) Matthews Correlation Coefficient MXScarna(20): 0.500 PPfold(20): 0.416 Sensitivity MXScarna(20): 0.353 PPfold(20): 0.197 Positive Predictive Value MXScarna(20): 0.710 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs PPfold(20) Matthews Correlation Coefficient UNAFold: 0.494 PPfold(20): 0.416 Sensitivity UNAFold: 0.491 PPfold(20): 0.197 Positive Predictive Value UNAFold: 0.498 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs PPfold(20) Matthews Correlation Coefficient Fold: 0.493 PPfold(20): 0.416 Sensitivity Fold: 0.496 PPfold(20): 0.197 Positive Predictive Value Fold: 0.490 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs PPfold(20) Matthews Correlation Coefficient RNAfold: 0.485 PPfold(20): 0.416 Sensitivity RNAfold: 0.486 PPfold(20): 0.197 Positive Predictive Value RNAfold: 0.485 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs PPfold(20) Matthews Correlation Coefficient PknotsRG: 0.474 PPfold(20): 0.416 Sensitivity PknotsRG: 0.440 PPfold(20): 0.197 Positive Predictive Value PknotsRG: 0.510 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs PPfold(20) Matthews Correlation Coefficient CRWrnafold: 0.430 PPfold(20): 0.416 Sensitivity CRWrnafold: 0.379 PPfold(20): 0.197 Positive Predictive Value CRWrnafold: 0.490 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs PPfold(20) Matthews Correlation Coefficient RNAsubopt: 0.422 PPfold(20): 0.416 Sensitivity RNAsubopt: 0.344 PPfold(20): 0.197 Positive Predictive Value RNAsubopt: 0.519 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 4.48494289621e-08	1242 TurboFold(20) vs PPfold(20) Matthews Correlation Coefficient TurboFold(20): 0.419 PPfold(20): 0.416 Sensitivity TurboFold(20): 0.210 PPfold(20): 0.197 Positive Predictive Value TurboFold(20): 0.837 PPfold(20): 0.879 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.85233844192e-08		+ PPfold(20) vs Afold Matthews Correlation Coefficient PPfold(20): 0.416 Afold: 0.408 Sensitivity PPfold(20): 0.197 Afold: 0.343 Positive Predictive Value PPfold(20): 0.879 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 7.5939721025e-08	+ PPfold(20) vs Carnac(20) Matthews Correlation Coefficient PPfold(20): 0.416 Carnac(20): 0.401 Sensitivity PPfold(20): 0.197 Carnac(20): 0.180 Positive Predictive Value PPfold(20): 0.879 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs McQFold Matthews Correlation Coefficient PPfold(20): 0.416 McQFold: 0.389 Sensitivity PPfold(20): 0.197 McQFold: 0.308 Positive Predictive Value PPfold(20): 0.879 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs RSpredict(20) Matthews Correlation Coefficient PPfold(20): 0.416 RSpredict(20): 0.377 Sensitivity PPfold(20): 0.197 RSpredict(20): 0.241 Positive Predictive Value PPfold(20): 0.879 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs RNAshapes Matthews Correlation Coefficient PPfold(20): 0.416 RNAshapes: 0.367 Sensitivity PPfold(20): 0.197 RNAshapes: 0.285 Positive Predictive Value PPfold(20): 0.879 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs RNASLOpt Matthews Correlation Coefficient PPfold(20): 0.416 RNASLOpt: 0.364 Sensitivity PPfold(20): 0.197 RNASLOpt: 0.261 Positive Predictive Value PPfold(20): 0.879 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Multilign(20) Matthews Correlation Coefficient PPfold(20): 0.416 Multilign(20): 0.350 Sensitivity PPfold(20): 0.197 Multilign(20): 0.161 Positive Predictive Value PPfold(20): 0.879 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Murlet(20) Matthews Correlation Coefficient PPfold(20): 0.416 Murlet(20): 0.321 Sensitivity PPfold(20): 0.197 Murlet(20): 0.131 Positive Predictive Value PPfold(20): 0.879 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs RNAwolf Matthews Correlation Coefficient PPfold(20): 0.416 RNAwolf: 0.310 Sensitivity PPfold(20): 0.197 RNAwolf: 0.261 Positive Predictive Value PPfold(20): 0.879 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs RSpredict(seed) Matthews Correlation Coefficient PPfold(20): 0.416 RSpredict(seed): 0.295 Sensitivity PPfold(20): 0.197 RSpredict(seed): 0.146 Positive Predictive Value PPfold(20): 0.879 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs CMfinder(20) Matthews Correlation Coefficient PPfold(20): 0.416 CMfinder(20): 0.292 Sensitivity PPfold(20): 0.197 CMfinder(20): 0.107 Positive Predictive Value PPfold(20): 0.879 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Vsfold4 Matthews Correlation Coefficient PPfold(20): 0.416 Vsfold4: 0.270 Sensitivity PPfold(20): 0.197 Vsfold4: 0.198 Positive Predictive Value PPfold(20): 0.879 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Vsfold5 Matthews Correlation Coefficient PPfold(20): 0.416 Vsfold5: 0.260 Sensitivity PPfold(20): 0.197 Vsfold5: 0.195 Positive Predictive Value PPfold(20): 0.879 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs RNASampler(20) Matthews Correlation Coefficient PPfold(20): 0.416 RNASampler(20): 0.246 Sensitivity PPfold(20): 0.197 RNASampler(20): 0.069 Positive Predictive Value PPfold(20): 0.879 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs HotKnots Matthews Correlation Coefficient PPfold(20): 0.416 HotKnots: 0.212 Sensitivity PPfold(20): 0.197 HotKnots: 0.069 Positive Predictive Value PPfold(20): 0.879 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Mastr(20) Matthews Correlation Coefficient PPfold(20): 0.416 Mastr(20): 0.187 Sensitivity PPfold(20): 0.197 Mastr(20): 0.044 Positive Predictive Value PPfold(20): 0.879 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Cylofold Matthews Correlation Coefficient PPfold(20): 0.416 Cylofold: 0.178 Sensitivity PPfold(20): 0.197 Cylofold: 0.053 Positive Predictive Value PPfold(20): 0.879 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Pknots Matthews Correlation Coefficient PPfold(20): 0.416 Pknots: 0.165 Sensitivity PPfold(20): 0.197 Pknots: 0.041 Positive Predictive Value PPfold(20): 0.879 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Alterna Matthews Correlation Coefficient PPfold(20): 0.416 Alterna: 0.145 Sensitivity PPfold(20): 0.197 Alterna: 0.036 Positive Predictive Value PPfold(20): 0.879 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs MCFold Matthews Correlation Coefficient PPfold(20): 0.416 MCFold: 0.138 Sensitivity PPfold(20): 0.197 MCFold: 0.044 Positive Predictive Value PPfold(20): 0.879 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs RDfolder Matthews Correlation Coefficient PPfold(20): 0.416 RDfolder: 0.138 Sensitivity PPfold(20): 0.197 RDfolder: 0.031 Positive Predictive Value PPfold(20): 0.879 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Murlet(seed) Matthews Correlation Coefficient PPfold(20): 0.416 Murlet(seed): 0.110 Sensitivity PPfold(20): 0.197 Murlet(seed): 0.015 Positive Predictive Value PPfold(20): 0.879 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs CMfinder(seed) Matthews Correlation Coefficient PPfold(20): 0.416 CMfinder(seed): 0.111 Sensitivity PPfold(20): 0.197 CMfinder(seed): 0.016 Positive Predictive Value PPfold(20): 0.879 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs TurboFold(seed) Matthews Correlation Coefficient PPfold(20): 0.416 TurboFold(seed): 0.106 Sensitivity PPfold(20): 0.197 TurboFold(seed): 0.014 Positive Predictive Value PPfold(20): 0.879 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs PPfold(seed) Matthews Correlation Coefficient PPfold(20): 0.416 PPfold(seed): 0.097 Sensitivity PPfold(20): 0.197 PPfold(seed): 0.012 Positive Predictive Value PPfold(20): 0.879 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Carnac(seed) Matthews Correlation Coefficient PPfold(20): 0.416 Carnac(seed): 0.093 Sensitivity PPfold(20): 0.197 Carnac(seed): 0.010 Positive Predictive Value PPfold(20): 0.879 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs RNASampler(seed) Matthews Correlation Coefficient PPfold(20): 0.416 RNASampler(seed): 0.088 Sensitivity PPfold(20): 0.197 RNASampler(seed): 0.009 Positive Predictive Value PPfold(20): 0.879 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Mastr(seed) Matthews Correlation Coefficient PPfold(20): 0.416 Mastr(seed): 0.072 Sensitivity PPfold(20): 0.197 Mastr(seed): 0.006 Positive Predictive Value PPfold(20): 0.879 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs NanoFolder Matthews Correlation Coefficient PPfold(20): 0.416 NanoFolder: 0.068 Sensitivity PPfold(20): 0.197 NanoFolder: 0.027 Positive Predictive Value PPfold(20): 0.879 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(20) vs Multilign(seed) Matthews Correlation Coefficient PPfold(20): 0.416 Multilign(seed): 0.059 Sensitivity PPfold(20): 0.197 Multilign(seed): 0.005 Positive Predictive Value PPfold(20): 0.879 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
Afold	1242 ContextFold vs Afold Matthews Correlation Coefficient ContextFold: 0.754 Afold: 0.408 Sensitivity ContextFold: 0.717 Afold: 0.343 Positive Predictive Value ContextFold: 0.794 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs Afold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Afold: 0.408 Sensitivity PETfold_pre2.0(seed): 0.667 Afold: 0.343 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs Afold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Afold: 0.408 Sensitivity CentroidAlifold(seed): 0.414 Afold: 0.343 Positive Predictive Value CentroidAlifold(seed): 0.901 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs Afold Matthews Correlation Coefficient IPknot: 0.607 Afold: 0.408 Sensitivity IPknot: 0.551 Afold: 0.343 Positive Predictive Value IPknot: 0.670 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs Afold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Afold: 0.408 Sensitivity PETfold_pre2.0(20): 0.410 Afold: 0.343 Positive Predictive Value PETfold_pre2.0(20): 0.807 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs Afold Matthews Correlation Coefficient CentroidFold: 0.571 Afold: 0.408 Sensitivity CentroidFold: 0.515 Afold: 0.343 Positive Predictive Value CentroidFold: 0.633 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs Afold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Afold: 0.408 Sensitivity CentroidAlifold(20): 0.369 Afold: 0.343 Positive Predictive Value CentroidAlifold(20): 0.891 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs Afold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Afold: 0.408 Sensitivity CentroidHomfold‑LAST: 0.359 Afold: 0.343 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs Afold Matthews Correlation Coefficient Contrafold: 0.556 Afold: 0.408 Sensitivity Contrafold: 0.542 Afold: 0.343 Positive Predictive Value Contrafold: 0.571 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs Afold Matthews Correlation Coefficient MXScarna(seed): 0.536 Afold: 0.408 Sensitivity MXScarna(seed): 0.382 Afold: 0.343 Positive Predictive Value MXScarna(seed): 0.753 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs Afold Matthews Correlation Coefficient RNAalifold(20): 0.532 Afold: 0.408 Sensitivity RNAalifold(20): 0.359 Afold: 0.343 Positive Predictive Value RNAalifold(20): 0.787 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs Afold Matthews Correlation Coefficient Sfold: 0.527 Afold: 0.408 Sensitivity Sfold: 0.477 Afold: 0.343 Positive Predictive Value Sfold: 0.582 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs Afold Matthews Correlation Coefficient RNAalifold(seed): 0.523 Afold: 0.408 Sensitivity RNAalifold(seed): 0.328 Afold: 0.343 Positive Predictive Value RNAalifold(seed): 0.835 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs Afold Matthews Correlation Coefficient MaxExpect: 0.516 Afold: 0.408 Sensitivity MaxExpect: 0.505 Afold: 0.343 Positive Predictive Value MaxExpect: 0.528 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs Afold Matthews Correlation Coefficient ProbKnot: 0.512 Afold: 0.408 Sensitivity ProbKnot: 0.508 Afold: 0.343 Positive Predictive Value ProbKnot: 0.517 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs Afold Matthews Correlation Coefficient MXScarna(20): 0.500 Afold: 0.408 Sensitivity MXScarna(20): 0.353 Afold: 0.343 Positive Predictive Value MXScarna(20): 0.710 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs Afold Matthews Correlation Coefficient UNAFold: 0.494 Afold: 0.408 Sensitivity UNAFold: 0.491 Afold: 0.343 Positive Predictive Value UNAFold: 0.498 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs Afold Matthews Correlation Coefficient Fold: 0.493 Afold: 0.408 Sensitivity Fold: 0.496 Afold: 0.343 Positive Predictive Value Fold: 0.490 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs Afold Matthews Correlation Coefficient RNAfold: 0.485 Afold: 0.408 Sensitivity RNAfold: 0.486 Afold: 0.343 Positive Predictive Value RNAfold: 0.485 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs Afold Matthews Correlation Coefficient PknotsRG: 0.474 Afold: 0.408 Sensitivity PknotsRG: 0.440 Afold: 0.343 Positive Predictive Value PknotsRG: 0.510 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs Afold Matthews Correlation Coefficient CRWrnafold: 0.430 Afold: 0.408 Sensitivity CRWrnafold: 0.379 Afold: 0.343 Positive Predictive Value CRWrnafold: 0.490 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs Afold Matthews Correlation Coefficient RNAsubopt: 0.422 Afold: 0.408 Sensitivity RNAsubopt: 0.344 Afold: 0.343 Positive Predictive Value RNAsubopt: 0.519 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs Afold Matthews Correlation Coefficient TurboFold(20): 0.419 Afold: 0.408 Sensitivity TurboFold(20): 0.210 Afold: 0.343 Positive Predictive Value TurboFold(20): 0.837 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs Afold Matthews Correlation Coefficient PPfold(20): 0.416 Afold: 0.408 Sensitivity PPfold(20): 0.197 Afold: 0.343 Positive Predictive Value PPfold(20): 0.879 Afold: 0.487 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 7.5939721025e-08		+ Afold vs Carnac(20) Matthews Correlation Coefficient Afold: 0.408 Carnac(20): 0.401 Sensitivity Afold: 0.343 Carnac(20): 0.180 Positive Predictive Value Afold: 0.487 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 4.1569883686e-08	+ Afold vs McQFold Matthews Correlation Coefficient Afold: 0.408 McQFold: 0.389 Sensitivity Afold: 0.343 McQFold: 0.308 Positive Predictive Value Afold: 0.487 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs RSpredict(20) Matthews Correlation Coefficient Afold: 0.408 RSpredict(20): 0.377 Sensitivity Afold: 0.343 RSpredict(20): 0.241 Positive Predictive Value Afold: 0.487 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs RNAshapes Matthews Correlation Coefficient Afold: 0.408 RNAshapes: 0.367 Sensitivity Afold: 0.343 RNAshapes: 0.285 Positive Predictive Value Afold: 0.487 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs RNASLOpt Matthews Correlation Coefficient Afold: 0.408 RNASLOpt: 0.364 Sensitivity Afold: 0.343 RNASLOpt: 0.261 Positive Predictive Value Afold: 0.487 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Multilign(20) Matthews Correlation Coefficient Afold: 0.408 Multilign(20): 0.350 Sensitivity Afold: 0.343 Multilign(20): 0.161 Positive Predictive Value Afold: 0.487 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Murlet(20) Matthews Correlation Coefficient Afold: 0.408 Murlet(20): 0.321 Sensitivity Afold: 0.343 Murlet(20): 0.131 Positive Predictive Value Afold: 0.487 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs RNAwolf Matthews Correlation Coefficient Afold: 0.408 RNAwolf: 0.310 Sensitivity Afold: 0.343 RNAwolf: 0.261 Positive Predictive Value Afold: 0.487 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs RSpredict(seed) Matthews Correlation Coefficient Afold: 0.408 RSpredict(seed): 0.295 Sensitivity Afold: 0.343 RSpredict(seed): 0.146 Positive Predictive Value Afold: 0.487 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs CMfinder(20) Matthews Correlation Coefficient Afold: 0.408 CMfinder(20): 0.292 Sensitivity Afold: 0.343 CMfinder(20): 0.107 Positive Predictive Value Afold: 0.487 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Vsfold4 Matthews Correlation Coefficient Afold: 0.408 Vsfold4: 0.270 Sensitivity Afold: 0.343 Vsfold4: 0.198 Positive Predictive Value Afold: 0.487 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Vsfold5 Matthews Correlation Coefficient Afold: 0.408 Vsfold5: 0.260 Sensitivity Afold: 0.343 Vsfold5: 0.195 Positive Predictive Value Afold: 0.487 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs RNASampler(20) Matthews Correlation Coefficient Afold: 0.408 RNASampler(20): 0.246 Sensitivity Afold: 0.343 RNASampler(20): 0.069 Positive Predictive Value Afold: 0.487 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs HotKnots Matthews Correlation Coefficient Afold: 0.408 HotKnots: 0.212 Sensitivity Afold: 0.343 HotKnots: 0.069 Positive Predictive Value Afold: 0.487 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Mastr(20) Matthews Correlation Coefficient Afold: 0.408 Mastr(20): 0.187 Sensitivity Afold: 0.343 Mastr(20): 0.044 Positive Predictive Value Afold: 0.487 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Cylofold Matthews Correlation Coefficient Afold: 0.408 Cylofold: 0.178 Sensitivity Afold: 0.343 Cylofold: 0.053 Positive Predictive Value Afold: 0.487 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Pknots Matthews Correlation Coefficient Afold: 0.408 Pknots: 0.165 Sensitivity Afold: 0.343 Pknots: 0.041 Positive Predictive Value Afold: 0.487 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Alterna Matthews Correlation Coefficient Afold: 0.408 Alterna: 0.145 Sensitivity Afold: 0.343 Alterna: 0.036 Positive Predictive Value Afold: 0.487 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs MCFold Matthews Correlation Coefficient Afold: 0.408 MCFold: 0.138 Sensitivity Afold: 0.343 MCFold: 0.044 Positive Predictive Value Afold: 0.487 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs RDfolder Matthews Correlation Coefficient Afold: 0.408 RDfolder: 0.138 Sensitivity Afold: 0.343 RDfolder: 0.031 Positive Predictive Value Afold: 0.487 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Murlet(seed) Matthews Correlation Coefficient Afold: 0.408 Murlet(seed): 0.110 Sensitivity Afold: 0.343 Murlet(seed): 0.015 Positive Predictive Value Afold: 0.487 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs CMfinder(seed) Matthews Correlation Coefficient Afold: 0.408 CMfinder(seed): 0.111 Sensitivity Afold: 0.343 CMfinder(seed): 0.016 Positive Predictive Value Afold: 0.487 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs TurboFold(seed) Matthews Correlation Coefficient Afold: 0.408 TurboFold(seed): 0.106 Sensitivity Afold: 0.343 TurboFold(seed): 0.014 Positive Predictive Value Afold: 0.487 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs PPfold(seed) Matthews Correlation Coefficient Afold: 0.408 PPfold(seed): 0.097 Sensitivity Afold: 0.343 PPfold(seed): 0.012 Positive Predictive Value Afold: 0.487 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Carnac(seed) Matthews Correlation Coefficient Afold: 0.408 Carnac(seed): 0.093 Sensitivity Afold: 0.343 Carnac(seed): 0.010 Positive Predictive Value Afold: 0.487 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs RNASampler(seed) Matthews Correlation Coefficient Afold: 0.408 RNASampler(seed): 0.088 Sensitivity Afold: 0.343 RNASampler(seed): 0.009 Positive Predictive Value Afold: 0.487 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Mastr(seed) Matthews Correlation Coefficient Afold: 0.408 Mastr(seed): 0.072 Sensitivity Afold: 0.343 Mastr(seed): 0.006 Positive Predictive Value Afold: 0.487 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs NanoFolder Matthews Correlation Coefficient Afold: 0.408 NanoFolder: 0.068 Sensitivity Afold: 0.343 NanoFolder: 0.027 Positive Predictive Value Afold: 0.487 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Afold vs Multilign(seed) Matthews Correlation Coefficient Afold: 0.408 Multilign(seed): 0.059 Sensitivity Afold: 0.343 Multilign(seed): 0.005 Positive Predictive Value Afold: 0.487 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
Carnac(20)	1242 ContextFold vs Carnac(20) Matthews Correlation Coefficient ContextFold: 0.754 Carnac(20): 0.401 Sensitivity ContextFold: 0.717 Carnac(20): 0.180 Positive Predictive Value ContextFold: 0.794 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs Carnac(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Carnac(20): 0.401 Sensitivity PETfold_pre2.0(seed): 0.667 Carnac(20): 0.180 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs Carnac(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Carnac(20): 0.401 Sensitivity CentroidAlifold(seed): 0.414 Carnac(20): 0.180 Positive Predictive Value CentroidAlifold(seed): 0.901 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs Carnac(20) Matthews Correlation Coefficient IPknot: 0.607 Carnac(20): 0.401 Sensitivity IPknot: 0.551 Carnac(20): 0.180 Positive Predictive Value IPknot: 0.670 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs Carnac(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Carnac(20): 0.401 Sensitivity PETfold_pre2.0(20): 0.410 Carnac(20): 0.180 Positive Predictive Value PETfold_pre2.0(20): 0.807 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs Carnac(20) Matthews Correlation Coefficient CentroidFold: 0.571 Carnac(20): 0.401 Sensitivity CentroidFold: 0.515 Carnac(20): 0.180 Positive Predictive Value CentroidFold: 0.633 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs Carnac(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Carnac(20): 0.401 Sensitivity CentroidAlifold(20): 0.369 Carnac(20): 0.180 Positive Predictive Value CentroidAlifold(20): 0.891 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs Carnac(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Carnac(20): 0.401 Sensitivity CentroidHomfold‑LAST: 0.359 Carnac(20): 0.180 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs Carnac(20) Matthews Correlation Coefficient Contrafold: 0.556 Carnac(20): 0.401 Sensitivity Contrafold: 0.542 Carnac(20): 0.180 Positive Predictive Value Contrafold: 0.571 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs Carnac(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 Carnac(20): 0.401 Sensitivity MXScarna(seed): 0.382 Carnac(20): 0.180 Positive Predictive Value MXScarna(seed): 0.753 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs Carnac(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 Carnac(20): 0.401 Sensitivity RNAalifold(20): 0.359 Carnac(20): 0.180 Positive Predictive Value RNAalifold(20): 0.787 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs Carnac(20) Matthews Correlation Coefficient Sfold: 0.527 Carnac(20): 0.401 Sensitivity Sfold: 0.477 Carnac(20): 0.180 Positive Predictive Value Sfold: 0.582 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs Carnac(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 Carnac(20): 0.401 Sensitivity RNAalifold(seed): 0.328 Carnac(20): 0.180 Positive Predictive Value RNAalifold(seed): 0.835 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs Carnac(20) Matthews Correlation Coefficient MaxExpect: 0.516 Carnac(20): 0.401 Sensitivity MaxExpect: 0.505 Carnac(20): 0.180 Positive Predictive Value MaxExpect: 0.528 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs Carnac(20) Matthews Correlation Coefficient ProbKnot: 0.512 Carnac(20): 0.401 Sensitivity ProbKnot: 0.508 Carnac(20): 0.180 Positive Predictive Value ProbKnot: 0.517 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs Carnac(20) Matthews Correlation Coefficient MXScarna(20): 0.500 Carnac(20): 0.401 Sensitivity MXScarna(20): 0.353 Carnac(20): 0.180 Positive Predictive Value MXScarna(20): 0.710 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs Carnac(20) Matthews Correlation Coefficient UNAFold: 0.494 Carnac(20): 0.401 Sensitivity UNAFold: 0.491 Carnac(20): 0.180 Positive Predictive Value UNAFold: 0.498 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs Carnac(20) Matthews Correlation Coefficient Fold: 0.493 Carnac(20): 0.401 Sensitivity Fold: 0.496 Carnac(20): 0.180 Positive Predictive Value Fold: 0.490 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs Carnac(20) Matthews Correlation Coefficient RNAfold: 0.485 Carnac(20): 0.401 Sensitivity RNAfold: 0.486 Carnac(20): 0.180 Positive Predictive Value RNAfold: 0.485 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs Carnac(20) Matthews Correlation Coefficient PknotsRG: 0.474 Carnac(20): 0.401 Sensitivity PknotsRG: 0.440 Carnac(20): 0.180 Positive Predictive Value PknotsRG: 0.510 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs Carnac(20) Matthews Correlation Coefficient CRWrnafold: 0.430 Carnac(20): 0.401 Sensitivity CRWrnafold: 0.379 Carnac(20): 0.180 Positive Predictive Value CRWrnafold: 0.490 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs Carnac(20) Matthews Correlation Coefficient RNAsubopt: 0.422 Carnac(20): 0.401 Sensitivity RNAsubopt: 0.344 Carnac(20): 0.180 Positive Predictive Value RNAsubopt: 0.519 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs Carnac(20) Matthews Correlation Coefficient TurboFold(20): 0.419 Carnac(20): 0.401 Sensitivity TurboFold(20): 0.210 Carnac(20): 0.180 Positive Predictive Value TurboFold(20): 0.837 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs Carnac(20) Matthews Correlation Coefficient PPfold(20): 0.416 Carnac(20): 0.401 Sensitivity PPfold(20): 0.197 Carnac(20): 0.180 Positive Predictive Value PPfold(20): 0.879 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs Carnac(20) Matthews Correlation Coefficient Afold: 0.408 Carnac(20): 0.401 Sensitivity Afold: 0.343 Carnac(20): 0.180 Positive Predictive Value Afold: 0.487 Carnac(20): 0.892 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 4.1569883686e-08		+ Carnac(20) vs McQFold Matthews Correlation Coefficient Carnac(20): 0.401 McQFold: 0.389 Sensitivity Carnac(20): 0.180 McQFold: 0.308 Positive Predictive Value Carnac(20): 0.892 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 4.1569883686e-08	+ Carnac(20) vs RSpredict(20) Matthews Correlation Coefficient Carnac(20): 0.401 RSpredict(20): 0.377 Sensitivity Carnac(20): 0.180 RSpredict(20): 0.241 Positive Predictive Value Carnac(20): 0.892 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs RNAshapes Matthews Correlation Coefficient Carnac(20): 0.401 RNAshapes: 0.367 Sensitivity Carnac(20): 0.180 RNAshapes: 0.285 Positive Predictive Value Carnac(20): 0.892 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs RNASLOpt Matthews Correlation Coefficient Carnac(20): 0.401 RNASLOpt: 0.364 Sensitivity Carnac(20): 0.180 RNASLOpt: 0.261 Positive Predictive Value Carnac(20): 0.892 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Multilign(20) Matthews Correlation Coefficient Carnac(20): 0.401 Multilign(20): 0.350 Sensitivity Carnac(20): 0.180 Multilign(20): 0.161 Positive Predictive Value Carnac(20): 0.892 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Murlet(20) Matthews Correlation Coefficient Carnac(20): 0.401 Murlet(20): 0.321 Sensitivity Carnac(20): 0.180 Murlet(20): 0.131 Positive Predictive Value Carnac(20): 0.892 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs RNAwolf Matthews Correlation Coefficient Carnac(20): 0.401 RNAwolf: 0.310 Sensitivity Carnac(20): 0.180 RNAwolf: 0.261 Positive Predictive Value Carnac(20): 0.892 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs RSpredict(seed) Matthews Correlation Coefficient Carnac(20): 0.401 RSpredict(seed): 0.295 Sensitivity Carnac(20): 0.180 RSpredict(seed): 0.146 Positive Predictive Value Carnac(20): 0.892 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs CMfinder(20) Matthews Correlation Coefficient Carnac(20): 0.401 CMfinder(20): 0.292 Sensitivity Carnac(20): 0.180 CMfinder(20): 0.107 Positive Predictive Value Carnac(20): 0.892 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Vsfold4 Matthews Correlation Coefficient Carnac(20): 0.401 Vsfold4: 0.270 Sensitivity Carnac(20): 0.180 Vsfold4: 0.198 Positive Predictive Value Carnac(20): 0.892 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Vsfold5 Matthews Correlation Coefficient Carnac(20): 0.401 Vsfold5: 0.260 Sensitivity Carnac(20): 0.180 Vsfold5: 0.195 Positive Predictive Value Carnac(20): 0.892 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs RNASampler(20) Matthews Correlation Coefficient Carnac(20): 0.401 RNASampler(20): 0.246 Sensitivity Carnac(20): 0.180 RNASampler(20): 0.069 Positive Predictive Value Carnac(20): 0.892 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs HotKnots Matthews Correlation Coefficient Carnac(20): 0.401 HotKnots: 0.212 Sensitivity Carnac(20): 0.180 HotKnots: 0.069 Positive Predictive Value Carnac(20): 0.892 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Mastr(20) Matthews Correlation Coefficient Carnac(20): 0.401 Mastr(20): 0.187 Sensitivity Carnac(20): 0.180 Mastr(20): 0.044 Positive Predictive Value Carnac(20): 0.892 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Cylofold Matthews Correlation Coefficient Carnac(20): 0.401 Cylofold: 0.178 Sensitivity Carnac(20): 0.180 Cylofold: 0.053 Positive Predictive Value Carnac(20): 0.892 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Pknots Matthews Correlation Coefficient Carnac(20): 0.401 Pknots: 0.165 Sensitivity Carnac(20): 0.180 Pknots: 0.041 Positive Predictive Value Carnac(20): 0.892 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Alterna Matthews Correlation Coefficient Carnac(20): 0.401 Alterna: 0.145 Sensitivity Carnac(20): 0.180 Alterna: 0.036 Positive Predictive Value Carnac(20): 0.892 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs MCFold Matthews Correlation Coefficient Carnac(20): 0.401 MCFold: 0.138 Sensitivity Carnac(20): 0.180 MCFold: 0.044 Positive Predictive Value Carnac(20): 0.892 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs RDfolder Matthews Correlation Coefficient Carnac(20): 0.401 RDfolder: 0.138 Sensitivity Carnac(20): 0.180 RDfolder: 0.031 Positive Predictive Value Carnac(20): 0.892 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Murlet(seed) Matthews Correlation Coefficient Carnac(20): 0.401 Murlet(seed): 0.110 Sensitivity Carnac(20): 0.180 Murlet(seed): 0.015 Positive Predictive Value Carnac(20): 0.892 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs CMfinder(seed) Matthews Correlation Coefficient Carnac(20): 0.401 CMfinder(seed): 0.111 Sensitivity Carnac(20): 0.180 CMfinder(seed): 0.016 Positive Predictive Value Carnac(20): 0.892 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs TurboFold(seed) Matthews Correlation Coefficient Carnac(20): 0.401 TurboFold(seed): 0.106 Sensitivity Carnac(20): 0.180 TurboFold(seed): 0.014 Positive Predictive Value Carnac(20): 0.892 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs PPfold(seed) Matthews Correlation Coefficient Carnac(20): 0.401 PPfold(seed): 0.097 Sensitivity Carnac(20): 0.180 PPfold(seed): 0.012 Positive Predictive Value Carnac(20): 0.892 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Carnac(seed) Matthews Correlation Coefficient Carnac(20): 0.401 Carnac(seed): 0.093 Sensitivity Carnac(20): 0.180 Carnac(seed): 0.010 Positive Predictive Value Carnac(20): 0.892 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs RNASampler(seed) Matthews Correlation Coefficient Carnac(20): 0.401 RNASampler(seed): 0.088 Sensitivity Carnac(20): 0.180 RNASampler(seed): 0.009 Positive Predictive Value Carnac(20): 0.892 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Mastr(seed) Matthews Correlation Coefficient Carnac(20): 0.401 Mastr(seed): 0.072 Sensitivity Carnac(20): 0.180 Mastr(seed): 0.006 Positive Predictive Value Carnac(20): 0.892 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs NanoFolder Matthews Correlation Coefficient Carnac(20): 0.401 NanoFolder: 0.068 Sensitivity Carnac(20): 0.180 NanoFolder: 0.027 Positive Predictive Value Carnac(20): 0.892 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(20) vs Multilign(seed) Matthews Correlation Coefficient Carnac(20): 0.401 Multilign(seed): 0.059 Sensitivity Carnac(20): 0.180 Multilign(seed): 0.005 Positive Predictive Value Carnac(20): 0.892 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
McQFold	1242 ContextFold vs McQFold Matthews Correlation Coefficient ContextFold: 0.754 McQFold: 0.389 Sensitivity ContextFold: 0.717 McQFold: 0.308 Positive Predictive Value ContextFold: 0.794 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs McQFold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 McQFold: 0.389 Sensitivity PETfold_pre2.0(seed): 0.667 McQFold: 0.308 Positive Predictive Value PETfold_pre2.0(seed): 0.814 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs McQFold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 McQFold: 0.389 Sensitivity CentroidAlifold(seed): 0.414 McQFold: 0.308 Positive Predictive Value CentroidAlifold(seed): 0.901 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs McQFold Matthews Correlation Coefficient IPknot: 0.607 McQFold: 0.389 Sensitivity IPknot: 0.551 McQFold: 0.308 Positive Predictive Value IPknot: 0.670 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs McQFold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 McQFold: 0.389 Sensitivity PETfold_pre2.0(20): 0.410 McQFold: 0.308 Positive Predictive Value PETfold_pre2.0(20): 0.807 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs McQFold Matthews Correlation Coefficient CentroidFold: 0.571 McQFold: 0.389 Sensitivity CentroidFold: 0.515 McQFold: 0.308 Positive Predictive Value CentroidFold: 0.633 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs McQFold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 McQFold: 0.389 Sensitivity CentroidAlifold(20): 0.369 McQFold: 0.308 Positive Predictive Value CentroidAlifold(20): 0.891 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs McQFold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 McQFold: 0.389 Sensitivity CentroidHomfold‑LAST: 0.359 McQFold: 0.308 Positive Predictive Value CentroidHomfold‑LAST: 0.874 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs McQFold Matthews Correlation Coefficient Contrafold: 0.556 McQFold: 0.389 Sensitivity Contrafold: 0.542 McQFold: 0.308 Positive Predictive Value Contrafold: 0.571 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs McQFold Matthews Correlation Coefficient MXScarna(seed): 0.536 McQFold: 0.389 Sensitivity MXScarna(seed): 0.382 McQFold: 0.308 Positive Predictive Value MXScarna(seed): 0.753 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs McQFold Matthews Correlation Coefficient RNAalifold(20): 0.532 McQFold: 0.389 Sensitivity RNAalifold(20): 0.359 McQFold: 0.308 Positive Predictive Value RNAalifold(20): 0.787 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs McQFold Matthews Correlation Coefficient Sfold: 0.527 McQFold: 0.389 Sensitivity Sfold: 0.477 McQFold: 0.308 Positive Predictive Value Sfold: 0.582 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs McQFold Matthews Correlation Coefficient RNAalifold(seed): 0.523 McQFold: 0.389 Sensitivity RNAalifold(seed): 0.328 McQFold: 0.308 Positive Predictive Value RNAalifold(seed): 0.835 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs McQFold Matthews Correlation Coefficient MaxExpect: 0.516 McQFold: 0.389 Sensitivity MaxExpect: 0.505 McQFold: 0.308 Positive Predictive Value MaxExpect: 0.528 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs McQFold Matthews Correlation Coefficient ProbKnot: 0.512 McQFold: 0.389 Sensitivity ProbKnot: 0.508 McQFold: 0.308 Positive Predictive Value ProbKnot: 0.517 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs McQFold Matthews Correlation Coefficient MXScarna(20): 0.500 McQFold: 0.389 Sensitivity MXScarna(20): 0.353 McQFold: 0.308 Positive Predictive Value MXScarna(20): 0.710 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs McQFold Matthews Correlation Coefficient UNAFold: 0.494 McQFold: 0.389 Sensitivity UNAFold: 0.491 McQFold: 0.308 Positive Predictive Value UNAFold: 0.498 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs McQFold Matthews Correlation Coefficient Fold: 0.493 McQFold: 0.389 Sensitivity Fold: 0.496 McQFold: 0.308 Positive Predictive Value Fold: 0.490 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs McQFold Matthews Correlation Coefficient RNAfold: 0.485 McQFold: 0.389 Sensitivity RNAfold: 0.486 McQFold: 0.308 Positive Predictive Value RNAfold: 0.485 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs McQFold Matthews Correlation Coefficient PknotsRG: 0.474 McQFold: 0.389 Sensitivity PknotsRG: 0.440 McQFold: 0.308 Positive Predictive Value PknotsRG: 0.510 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs McQFold Matthews Correlation Coefficient CRWrnafold: 0.430 McQFold: 0.389 Sensitivity CRWrnafold: 0.379 McQFold: 0.308 Positive Predictive Value CRWrnafold: 0.490 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs McQFold Matthews Correlation Coefficient RNAsubopt: 0.422 McQFold: 0.389 Sensitivity RNAsubopt: 0.344 McQFold: 0.308 Positive Predictive Value RNAsubopt: 0.519 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs McQFold Matthews Correlation Coefficient TurboFold(20): 0.419 McQFold: 0.389 Sensitivity TurboFold(20): 0.210 McQFold: 0.308 Positive Predictive Value TurboFold(20): 0.837 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs McQFold Matthews Correlation Coefficient PPfold(20): 0.416 McQFold: 0.389 Sensitivity PPfold(20): 0.197 McQFold: 0.308 Positive Predictive Value PPfold(20): 0.879 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs McQFold Matthews Correlation Coefficient Afold: 0.408 McQFold: 0.389 Sensitivity Afold: 0.343 McQFold: 0.308 Positive Predictive Value Afold: 0.487 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs McQFold Matthews Correlation Coefficient Carnac(20): 0.401 McQFold: 0.389 Sensitivity Carnac(20): 0.180 McQFold: 0.308 Positive Predictive Value Carnac(20): 0.892 McQFold: 0.492 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 4.1569883686e-08		+ McQFold vs RSpredict(20) Matthews Correlation Coefficient McQFold: 0.389 RSpredict(20): 0.377 Sensitivity McQFold: 0.308 RSpredict(20): 0.241 Positive Predictive Value McQFold: 0.492 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs RNAshapes Matthews Correlation Coefficient McQFold: 0.389 RNAshapes: 0.367 Sensitivity McQFold: 0.308 RNAshapes: 0.285 Positive Predictive Value McQFold: 0.492 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs RNASLOpt Matthews Correlation Coefficient McQFold: 0.389 RNASLOpt: 0.364 Sensitivity McQFold: 0.308 RNASLOpt: 0.261 Positive Predictive Value McQFold: 0.492 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Multilign(20) Matthews Correlation Coefficient McQFold: 0.389 Multilign(20): 0.350 Sensitivity McQFold: 0.308 Multilign(20): 0.161 Positive Predictive Value McQFold: 0.492 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Murlet(20) Matthews Correlation Coefficient McQFold: 0.389 Murlet(20): 0.321 Sensitivity McQFold: 0.308 Murlet(20): 0.131 Positive Predictive Value McQFold: 0.492 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs RNAwolf Matthews Correlation Coefficient McQFold: 0.389 RNAwolf: 0.310 Sensitivity McQFold: 0.308 RNAwolf: 0.261 Positive Predictive Value McQFold: 0.492 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs RSpredict(seed) Matthews Correlation Coefficient McQFold: 0.389 RSpredict(seed): 0.295 Sensitivity McQFold: 0.308 RSpredict(seed): 0.146 Positive Predictive Value McQFold: 0.492 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs CMfinder(20) Matthews Correlation Coefficient McQFold: 0.389 CMfinder(20): 0.292 Sensitivity McQFold: 0.308 CMfinder(20): 0.107 Positive Predictive Value McQFold: 0.492 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Vsfold4 Matthews Correlation Coefficient McQFold: 0.389 Vsfold4: 0.270 Sensitivity McQFold: 0.308 Vsfold4: 0.198 Positive Predictive Value McQFold: 0.492 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Vsfold5 Matthews Correlation Coefficient McQFold: 0.389 Vsfold5: 0.260 Sensitivity McQFold: 0.308 Vsfold5: 0.195 Positive Predictive Value McQFold: 0.492 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs RNASampler(20) Matthews Correlation Coefficient McQFold: 0.389 RNASampler(20): 0.246 Sensitivity McQFold: 0.308 RNASampler(20): 0.069 Positive Predictive Value McQFold: 0.492 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs HotKnots Matthews Correlation Coefficient McQFold: 0.389 HotKnots: 0.212 Sensitivity McQFold: 0.308 HotKnots: 0.069 Positive Predictive Value McQFold: 0.492 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Mastr(20) Matthews Correlation Coefficient McQFold: 0.389 Mastr(20): 0.187 Sensitivity McQFold: 0.308 Mastr(20): 0.044 Positive Predictive Value McQFold: 0.492 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Cylofold Matthews Correlation Coefficient McQFold: 0.389 Cylofold: 0.178 Sensitivity McQFold: 0.308 Cylofold: 0.053 Positive Predictive Value McQFold: 0.492 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Pknots Matthews Correlation Coefficient McQFold: 0.389 Pknots: 0.165 Sensitivity McQFold: 0.308 Pknots: 0.041 Positive Predictive Value McQFold: 0.492 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Alterna Matthews Correlation Coefficient McQFold: 0.389 Alterna: 0.145 Sensitivity McQFold: 0.308 Alterna: 0.036 Positive Predictive Value McQFold: 0.492 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs MCFold Matthews Correlation Coefficient McQFold: 0.389 MCFold: 0.138 Sensitivity McQFold: 0.308 MCFold: 0.044 Positive Predictive Value McQFold: 0.492 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs RDfolder Matthews Correlation Coefficient McQFold: 0.389 RDfolder: 0.138 Sensitivity McQFold: 0.308 RDfolder: 0.031 Positive Predictive Value McQFold: 0.492 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Murlet(seed) Matthews Correlation Coefficient McQFold: 0.389 Murlet(seed): 0.110 Sensitivity McQFold: 0.308 Murlet(seed): 0.015 Positive Predictive Value McQFold: 0.492 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs CMfinder(seed) Matthews Correlation Coefficient McQFold: 0.389 CMfinder(seed): 0.111 Sensitivity McQFold: 0.308 CMfinder(seed): 0.016 Positive Predictive Value McQFold: 0.492 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs TurboFold(seed) Matthews Correlation Coefficient McQFold: 0.389 TurboFold(seed): 0.106 Sensitivity McQFold: 0.308 TurboFold(seed): 0.014 Positive Predictive Value McQFold: 0.492 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs PPfold(seed) Matthews Correlation Coefficient McQFold: 0.389 PPfold(seed): 0.097 Sensitivity McQFold: 0.308 PPfold(seed): 0.012 Positive Predictive Value McQFold: 0.492 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Carnac(seed) Matthews Correlation Coefficient McQFold: 0.389 Carnac(seed): 0.093 Sensitivity McQFold: 0.308 Carnac(seed): 0.010 Positive Predictive Value McQFold: 0.492 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs RNASampler(seed) Matthews Correlation Coefficient McQFold: 0.389 RNASampler(seed): 0.088 Sensitivity McQFold: 0.308 RNASampler(seed): 0.009 Positive Predictive Value McQFold: 0.492 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Mastr(seed) Matthews Correlation Coefficient McQFold: 0.389 Mastr(seed): 0.072 Sensitivity McQFold: 0.308 Mastr(seed): 0.006 Positive Predictive Value McQFold: 0.492 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs NanoFolder Matthews Correlation Coefficient McQFold: 0.389 NanoFolder: 0.068 Sensitivity McQFold: 0.308 NanoFolder: 0.027 Positive Predictive Value McQFold: 0.492 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ McQFold vs Multilign(seed) Matthews Correlation Coefficient McQFold: 0.389 Multilign(seed): 0.059 Sensitivity McQFold: 0.308 Multilign(seed): 0.005 Positive Predictive Value McQFold: 0.492 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
RSpredict(20)	1242 ContextFold vs RSpredict(20) Matthews Correlation Coefficient ContextFold: 0.754 RSpredict(20): 0.377 Sensitivity ContextFold: 0.717 RSpredict(20): 0.241 Positive Predictive Value ContextFold: 0.794 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs RSpredict(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RSpredict(20): 0.377 Sensitivity PETfold_pre2.0(seed): 0.667 RSpredict(20): 0.241 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs RSpredict(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RSpredict(20): 0.377 Sensitivity CentroidAlifold(seed): 0.414 RSpredict(20): 0.241 Positive Predictive Value CentroidAlifold(seed): 0.901 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs RSpredict(20) Matthews Correlation Coefficient IPknot: 0.607 RSpredict(20): 0.377 Sensitivity IPknot: 0.551 RSpredict(20): 0.241 Positive Predictive Value IPknot: 0.670 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs RSpredict(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RSpredict(20): 0.377 Sensitivity PETfold_pre2.0(20): 0.410 RSpredict(20): 0.241 Positive Predictive Value PETfold_pre2.0(20): 0.807 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs RSpredict(20) Matthews Correlation Coefficient CentroidFold: 0.571 RSpredict(20): 0.377 Sensitivity CentroidFold: 0.515 RSpredict(20): 0.241 Positive Predictive Value CentroidFold: 0.633 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs RSpredict(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RSpredict(20): 0.377 Sensitivity CentroidAlifold(20): 0.369 RSpredict(20): 0.241 Positive Predictive Value CentroidAlifold(20): 0.891 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs RSpredict(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RSpredict(20): 0.377 Sensitivity CentroidHomfold‑LAST: 0.359 RSpredict(20): 0.241 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs RSpredict(20) Matthews Correlation Coefficient Contrafold: 0.556 RSpredict(20): 0.377 Sensitivity Contrafold: 0.542 RSpredict(20): 0.241 Positive Predictive Value Contrafold: 0.571 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs RSpredict(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 RSpredict(20): 0.377 Sensitivity MXScarna(seed): 0.382 RSpredict(20): 0.241 Positive Predictive Value MXScarna(seed): 0.753 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs RSpredict(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 RSpredict(20): 0.377 Sensitivity RNAalifold(20): 0.359 RSpredict(20): 0.241 Positive Predictive Value RNAalifold(20): 0.787 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs RSpredict(20) Matthews Correlation Coefficient Sfold: 0.527 RSpredict(20): 0.377 Sensitivity Sfold: 0.477 RSpredict(20): 0.241 Positive Predictive Value Sfold: 0.582 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs RSpredict(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 RSpredict(20): 0.377 Sensitivity RNAalifold(seed): 0.328 RSpredict(20): 0.241 Positive Predictive Value RNAalifold(seed): 0.835 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs RSpredict(20) Matthews Correlation Coefficient MaxExpect: 0.516 RSpredict(20): 0.377 Sensitivity MaxExpect: 0.505 RSpredict(20): 0.241 Positive Predictive Value MaxExpect: 0.528 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs RSpredict(20) Matthews Correlation Coefficient ProbKnot: 0.512 RSpredict(20): 0.377 Sensitivity ProbKnot: 0.508 RSpredict(20): 0.241 Positive Predictive Value ProbKnot: 0.517 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs RSpredict(20) Matthews Correlation Coefficient MXScarna(20): 0.500 RSpredict(20): 0.377 Sensitivity MXScarna(20): 0.353 RSpredict(20): 0.241 Positive Predictive Value MXScarna(20): 0.710 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs RSpredict(20) Matthews Correlation Coefficient UNAFold: 0.494 RSpredict(20): 0.377 Sensitivity UNAFold: 0.491 RSpredict(20): 0.241 Positive Predictive Value UNAFold: 0.498 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs RSpredict(20) Matthews Correlation Coefficient Fold: 0.493 RSpredict(20): 0.377 Sensitivity Fold: 0.496 RSpredict(20): 0.241 Positive Predictive Value Fold: 0.490 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs RSpredict(20) Matthews Correlation Coefficient RNAfold: 0.485 RSpredict(20): 0.377 Sensitivity RNAfold: 0.486 RSpredict(20): 0.241 Positive Predictive Value RNAfold: 0.485 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs RSpredict(20) Matthews Correlation Coefficient PknotsRG: 0.474 RSpredict(20): 0.377 Sensitivity PknotsRG: 0.440 RSpredict(20): 0.241 Positive Predictive Value PknotsRG: 0.510 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs RSpredict(20) Matthews Correlation Coefficient CRWrnafold: 0.430 RSpredict(20): 0.377 Sensitivity CRWrnafold: 0.379 RSpredict(20): 0.241 Positive Predictive Value CRWrnafold: 0.490 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs RSpredict(20) Matthews Correlation Coefficient RNAsubopt: 0.422 RSpredict(20): 0.377 Sensitivity RNAsubopt: 0.344 RSpredict(20): 0.241 Positive Predictive Value RNAsubopt: 0.519 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs RSpredict(20) Matthews Correlation Coefficient TurboFold(20): 0.419 RSpredict(20): 0.377 Sensitivity TurboFold(20): 0.210 RSpredict(20): 0.241 Positive Predictive Value TurboFold(20): 0.837 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs RSpredict(20) Matthews Correlation Coefficient PPfold(20): 0.416 RSpredict(20): 0.377 Sensitivity PPfold(20): 0.197 RSpredict(20): 0.241 Positive Predictive Value PPfold(20): 0.879 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs RSpredict(20) Matthews Correlation Coefficient Afold: 0.408 RSpredict(20): 0.377 Sensitivity Afold: 0.343 RSpredict(20): 0.241 Positive Predictive Value Afold: 0.487 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs RSpredict(20) Matthews Correlation Coefficient Carnac(20): 0.401 RSpredict(20): 0.377 Sensitivity Carnac(20): 0.180 RSpredict(20): 0.241 Positive Predictive Value Carnac(20): 0.892 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs RSpredict(20) Matthews Correlation Coefficient McQFold: 0.389 RSpredict(20): 0.377 Sensitivity McQFold: 0.308 RSpredict(20): 0.241 Positive Predictive Value McQFold: 0.492 RSpredict(20): 0.590 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ RSpredict(20) vs RNAshapes Matthews Correlation Coefficient RSpredict(20): 0.377 RNAshapes: 0.367 Sensitivity RSpredict(20): 0.241 RNAshapes: 0.285 Positive Predictive Value RSpredict(20): 0.590 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 1.18450348589e-07	+ RSpredict(20) vs RNASLOpt Matthews Correlation Coefficient RSpredict(20): 0.377 RNASLOpt: 0.364 Sensitivity RSpredict(20): 0.241 RNASLOpt: 0.261 Positive Predictive Value RSpredict(20): 0.590 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Multilign(20) Matthews Correlation Coefficient RSpredict(20): 0.377 Multilign(20): 0.350 Sensitivity RSpredict(20): 0.241 Multilign(20): 0.161 Positive Predictive Value RSpredict(20): 0.590 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Murlet(20) Matthews Correlation Coefficient RSpredict(20): 0.377 Murlet(20): 0.321 Sensitivity RSpredict(20): 0.241 Murlet(20): 0.131 Positive Predictive Value RSpredict(20): 0.590 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs RNAwolf Matthews Correlation Coefficient RSpredict(20): 0.377 RNAwolf: 0.310 Sensitivity RSpredict(20): 0.241 RNAwolf: 0.261 Positive Predictive Value RSpredict(20): 0.590 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs RSpredict(seed) Matthews Correlation Coefficient RSpredict(20): 0.377 RSpredict(seed): 0.295 Sensitivity RSpredict(20): 0.241 RSpredict(seed): 0.146 Positive Predictive Value RSpredict(20): 0.590 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs CMfinder(20) Matthews Correlation Coefficient RSpredict(20): 0.377 CMfinder(20): 0.292 Sensitivity RSpredict(20): 0.241 CMfinder(20): 0.107 Positive Predictive Value RSpredict(20): 0.590 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Vsfold4 Matthews Correlation Coefficient RSpredict(20): 0.377 Vsfold4: 0.270 Sensitivity RSpredict(20): 0.241 Vsfold4: 0.198 Positive Predictive Value RSpredict(20): 0.590 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Vsfold5 Matthews Correlation Coefficient RSpredict(20): 0.377 Vsfold5: 0.260 Sensitivity RSpredict(20): 0.241 Vsfold5: 0.195 Positive Predictive Value RSpredict(20): 0.590 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs RNASampler(20) Matthews Correlation Coefficient RSpredict(20): 0.377 RNASampler(20): 0.246 Sensitivity RSpredict(20): 0.241 RNASampler(20): 0.069 Positive Predictive Value RSpredict(20): 0.590 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs HotKnots Matthews Correlation Coefficient RSpredict(20): 0.377 HotKnots: 0.212 Sensitivity RSpredict(20): 0.241 HotKnots: 0.069 Positive Predictive Value RSpredict(20): 0.590 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Mastr(20) Matthews Correlation Coefficient RSpredict(20): 0.377 Mastr(20): 0.187 Sensitivity RSpredict(20): 0.241 Mastr(20): 0.044 Positive Predictive Value RSpredict(20): 0.590 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Cylofold Matthews Correlation Coefficient RSpredict(20): 0.377 Cylofold: 0.178 Sensitivity RSpredict(20): 0.241 Cylofold: 0.053 Positive Predictive Value RSpredict(20): 0.590 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Pknots Matthews Correlation Coefficient RSpredict(20): 0.377 Pknots: 0.165 Sensitivity RSpredict(20): 0.241 Pknots: 0.041 Positive Predictive Value RSpredict(20): 0.590 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Alterna Matthews Correlation Coefficient RSpredict(20): 0.377 Alterna: 0.145 Sensitivity RSpredict(20): 0.241 Alterna: 0.036 Positive Predictive Value RSpredict(20): 0.590 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs MCFold Matthews Correlation Coefficient RSpredict(20): 0.377 MCFold: 0.138 Sensitivity RSpredict(20): 0.241 MCFold: 0.044 Positive Predictive Value RSpredict(20): 0.590 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs RDfolder Matthews Correlation Coefficient RSpredict(20): 0.377 RDfolder: 0.138 Sensitivity RSpredict(20): 0.241 RDfolder: 0.031 Positive Predictive Value RSpredict(20): 0.590 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Murlet(seed) Matthews Correlation Coefficient RSpredict(20): 0.377 Murlet(seed): 0.110 Sensitivity RSpredict(20): 0.241 Murlet(seed): 0.015 Positive Predictive Value RSpredict(20): 0.590 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs CMfinder(seed) Matthews Correlation Coefficient RSpredict(20): 0.377 CMfinder(seed): 0.111 Sensitivity RSpredict(20): 0.241 CMfinder(seed): 0.016 Positive Predictive Value RSpredict(20): 0.590 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs TurboFold(seed) Matthews Correlation Coefficient RSpredict(20): 0.377 TurboFold(seed): 0.106 Sensitivity RSpredict(20): 0.241 TurboFold(seed): 0.014 Positive Predictive Value RSpredict(20): 0.590 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs PPfold(seed) Matthews Correlation Coefficient RSpredict(20): 0.377 PPfold(seed): 0.097 Sensitivity RSpredict(20): 0.241 PPfold(seed): 0.012 Positive Predictive Value RSpredict(20): 0.590 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Carnac(seed) Matthews Correlation Coefficient RSpredict(20): 0.377 Carnac(seed): 0.093 Sensitivity RSpredict(20): 0.241 Carnac(seed): 0.010 Positive Predictive Value RSpredict(20): 0.590 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs RNASampler(seed) Matthews Correlation Coefficient RSpredict(20): 0.377 RNASampler(seed): 0.088 Sensitivity RSpredict(20): 0.241 RNASampler(seed): 0.009 Positive Predictive Value RSpredict(20): 0.590 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Mastr(seed) Matthews Correlation Coefficient RSpredict(20): 0.377 Mastr(seed): 0.072 Sensitivity RSpredict(20): 0.241 Mastr(seed): 0.006 Positive Predictive Value RSpredict(20): 0.590 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs NanoFolder Matthews Correlation Coefficient RSpredict(20): 0.377 NanoFolder: 0.068 Sensitivity RSpredict(20): 0.241 NanoFolder: 0.027 Positive Predictive Value RSpredict(20): 0.590 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(20) vs Multilign(seed) Matthews Correlation Coefficient RSpredict(20): 0.377 Multilign(seed): 0.059 Sensitivity RSpredict(20): 0.241 Multilign(seed): 0.005 Positive Predictive Value RSpredict(20): 0.590 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
RNAshapes	1242 ContextFold vs RNAshapes Matthews Correlation Coefficient ContextFold: 0.754 RNAshapes: 0.367 Sensitivity ContextFold: 0.717 RNAshapes: 0.285 Positive Predictive Value ContextFold: 0.794 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs RNAshapes Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RNAshapes: 0.367 Sensitivity PETfold_pre2.0(seed): 0.667 RNAshapes: 0.285 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs RNAshapes Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RNAshapes: 0.367 Sensitivity CentroidAlifold(seed): 0.414 RNAshapes: 0.285 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs RNAshapes Matthews Correlation Coefficient IPknot: 0.607 RNAshapes: 0.367 Sensitivity IPknot: 0.551 RNAshapes: 0.285 Positive Predictive Value IPknot: 0.670 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs RNAshapes Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RNAshapes: 0.367 Sensitivity PETfold_pre2.0(20): 0.410 RNAshapes: 0.285 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs RNAshapes Matthews Correlation Coefficient CentroidFold: 0.571 RNAshapes: 0.367 Sensitivity CentroidFold: 0.515 RNAshapes: 0.285 Positive Predictive Value CentroidFold: 0.633 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs RNAshapes Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RNAshapes: 0.367 Sensitivity CentroidAlifold(20): 0.369 RNAshapes: 0.285 Positive Predictive Value CentroidAlifold(20): 0.891 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs RNAshapes Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RNAshapes: 0.367 Sensitivity CentroidHomfold‑LAST: 0.359 RNAshapes: 0.285 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs RNAshapes Matthews Correlation Coefficient Contrafold: 0.556 RNAshapes: 0.367 Sensitivity Contrafold: 0.542 RNAshapes: 0.285 Positive Predictive Value Contrafold: 0.571 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs RNAshapes Matthews Correlation Coefficient MXScarna(seed): 0.536 RNAshapes: 0.367 Sensitivity MXScarna(seed): 0.382 RNAshapes: 0.285 Positive Predictive Value MXScarna(seed): 0.753 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs RNAshapes Matthews Correlation Coefficient RNAalifold(20): 0.532 RNAshapes: 0.367 Sensitivity RNAalifold(20): 0.359 RNAshapes: 0.285 Positive Predictive Value RNAalifold(20): 0.787 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs RNAshapes Matthews Correlation Coefficient Sfold: 0.527 RNAshapes: 0.367 Sensitivity Sfold: 0.477 RNAshapes: 0.285 Positive Predictive Value Sfold: 0.582 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs RNAshapes Matthews Correlation Coefficient RNAalifold(seed): 0.523 RNAshapes: 0.367 Sensitivity RNAalifold(seed): 0.328 RNAshapes: 0.285 Positive Predictive Value RNAalifold(seed): 0.835 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs RNAshapes Matthews Correlation Coefficient MaxExpect: 0.516 RNAshapes: 0.367 Sensitivity MaxExpect: 0.505 RNAshapes: 0.285 Positive Predictive Value MaxExpect: 0.528 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs RNAshapes Matthews Correlation Coefficient ProbKnot: 0.512 RNAshapes: 0.367 Sensitivity ProbKnot: 0.508 RNAshapes: 0.285 Positive Predictive Value ProbKnot: 0.517 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs RNAshapes Matthews Correlation Coefficient MXScarna(20): 0.500 RNAshapes: 0.367 Sensitivity MXScarna(20): 0.353 RNAshapes: 0.285 Positive Predictive Value MXScarna(20): 0.710 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs RNAshapes Matthews Correlation Coefficient UNAFold: 0.494 RNAshapes: 0.367 Sensitivity UNAFold: 0.491 RNAshapes: 0.285 Positive Predictive Value UNAFold: 0.498 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs RNAshapes Matthews Correlation Coefficient Fold: 0.493 RNAshapes: 0.367 Sensitivity Fold: 0.496 RNAshapes: 0.285 Positive Predictive Value Fold: 0.490 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs RNAshapes Matthews Correlation Coefficient RNAfold: 0.485 RNAshapes: 0.367 Sensitivity RNAfold: 0.486 RNAshapes: 0.285 Positive Predictive Value RNAfold: 0.485 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs RNAshapes Matthews Correlation Coefficient PknotsRG: 0.474 RNAshapes: 0.367 Sensitivity PknotsRG: 0.440 RNAshapes: 0.285 Positive Predictive Value PknotsRG: 0.510 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs RNAshapes Matthews Correlation Coefficient CRWrnafold: 0.430 RNAshapes: 0.367 Sensitivity CRWrnafold: 0.379 RNAshapes: 0.285 Positive Predictive Value CRWrnafold: 0.490 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs RNAshapes Matthews Correlation Coefficient RNAsubopt: 0.422 RNAshapes: 0.367 Sensitivity RNAsubopt: 0.344 RNAshapes: 0.285 Positive Predictive Value RNAsubopt: 0.519 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs RNAshapes Matthews Correlation Coefficient TurboFold(20): 0.419 RNAshapes: 0.367 Sensitivity TurboFold(20): 0.210 RNAshapes: 0.285 Positive Predictive Value TurboFold(20): 0.837 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs RNAshapes Matthews Correlation Coefficient PPfold(20): 0.416 RNAshapes: 0.367 Sensitivity PPfold(20): 0.197 RNAshapes: 0.285 Positive Predictive Value PPfold(20): 0.879 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs RNAshapes Matthews Correlation Coefficient Afold: 0.408 RNAshapes: 0.367 Sensitivity Afold: 0.343 RNAshapes: 0.285 Positive Predictive Value Afold: 0.487 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs RNAshapes Matthews Correlation Coefficient Carnac(20): 0.401 RNAshapes: 0.367 Sensitivity Carnac(20): 0.180 RNAshapes: 0.285 Positive Predictive Value Carnac(20): 0.892 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs RNAshapes Matthews Correlation Coefficient McQFold: 0.389 RNAshapes: 0.367 Sensitivity McQFold: 0.308 RNAshapes: 0.285 Positive Predictive Value McQFold: 0.492 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs RNAshapes Matthews Correlation Coefficient RSpredict(20): 0.377 RNAshapes: 0.367 Sensitivity RSpredict(20): 0.241 RNAshapes: 0.285 Positive Predictive Value RSpredict(20): 0.590 RNAshapes: 0.474 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 1.18450348589e-07		+ RNAshapes vs RNASLOpt Matthews Correlation Coefficient RNAshapes: 0.367 RNASLOpt: 0.364 Sensitivity RNAshapes: 0.285 RNASLOpt: 0.261 Positive Predictive Value RNAshapes: 0.474 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 7.04732813174e-08	+ RNAshapes vs Multilign(20) Matthews Correlation Coefficient RNAshapes: 0.367 Multilign(20): 0.350 Sensitivity RNAshapes: 0.285 Multilign(20): 0.161 Positive Predictive Value RNAshapes: 0.474 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Murlet(20) Matthews Correlation Coefficient RNAshapes: 0.367 Murlet(20): 0.321 Sensitivity RNAshapes: 0.285 Murlet(20): 0.131 Positive Predictive Value RNAshapes: 0.474 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs RNAwolf Matthews Correlation Coefficient RNAshapes: 0.367 RNAwolf: 0.310 Sensitivity RNAshapes: 0.285 RNAwolf: 0.261 Positive Predictive Value RNAshapes: 0.474 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs RSpredict(seed) Matthews Correlation Coefficient RNAshapes: 0.367 RSpredict(seed): 0.295 Sensitivity RNAshapes: 0.285 RSpredict(seed): 0.146 Positive Predictive Value RNAshapes: 0.474 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs CMfinder(20) Matthews Correlation Coefficient RNAshapes: 0.367 CMfinder(20): 0.292 Sensitivity RNAshapes: 0.285 CMfinder(20): 0.107 Positive Predictive Value RNAshapes: 0.474 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Vsfold4 Matthews Correlation Coefficient RNAshapes: 0.367 Vsfold4: 0.270 Sensitivity RNAshapes: 0.285 Vsfold4: 0.198 Positive Predictive Value RNAshapes: 0.474 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Vsfold5 Matthews Correlation Coefficient RNAshapes: 0.367 Vsfold5: 0.260 Sensitivity RNAshapes: 0.285 Vsfold5: 0.195 Positive Predictive Value RNAshapes: 0.474 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs RNASampler(20) Matthews Correlation Coefficient RNAshapes: 0.367 RNASampler(20): 0.246 Sensitivity RNAshapes: 0.285 RNASampler(20): 0.069 Positive Predictive Value RNAshapes: 0.474 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs HotKnots Matthews Correlation Coefficient RNAshapes: 0.367 HotKnots: 0.212 Sensitivity RNAshapes: 0.285 HotKnots: 0.069 Positive Predictive Value RNAshapes: 0.474 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Mastr(20) Matthews Correlation Coefficient RNAshapes: 0.367 Mastr(20): 0.187 Sensitivity RNAshapes: 0.285 Mastr(20): 0.044 Positive Predictive Value RNAshapes: 0.474 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Cylofold Matthews Correlation Coefficient RNAshapes: 0.367 Cylofold: 0.178 Sensitivity RNAshapes: 0.285 Cylofold: 0.053 Positive Predictive Value RNAshapes: 0.474 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Pknots Matthews Correlation Coefficient RNAshapes: 0.367 Pknots: 0.165 Sensitivity RNAshapes: 0.285 Pknots: 0.041 Positive Predictive Value RNAshapes: 0.474 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Alterna Matthews Correlation Coefficient RNAshapes: 0.367 Alterna: 0.145 Sensitivity RNAshapes: 0.285 Alterna: 0.036 Positive Predictive Value RNAshapes: 0.474 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs MCFold Matthews Correlation Coefficient RNAshapes: 0.367 MCFold: 0.138 Sensitivity RNAshapes: 0.285 MCFold: 0.044 Positive Predictive Value RNAshapes: 0.474 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs RDfolder Matthews Correlation Coefficient RNAshapes: 0.367 RDfolder: 0.138 Sensitivity RNAshapes: 0.285 RDfolder: 0.031 Positive Predictive Value RNAshapes: 0.474 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Murlet(seed) Matthews Correlation Coefficient RNAshapes: 0.367 Murlet(seed): 0.110 Sensitivity RNAshapes: 0.285 Murlet(seed): 0.015 Positive Predictive Value RNAshapes: 0.474 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs CMfinder(seed) Matthews Correlation Coefficient RNAshapes: 0.367 CMfinder(seed): 0.111 Sensitivity RNAshapes: 0.285 CMfinder(seed): 0.016 Positive Predictive Value RNAshapes: 0.474 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs TurboFold(seed) Matthews Correlation Coefficient RNAshapes: 0.367 TurboFold(seed): 0.106 Sensitivity RNAshapes: 0.285 TurboFold(seed): 0.014 Positive Predictive Value RNAshapes: 0.474 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs PPfold(seed) Matthews Correlation Coefficient RNAshapes: 0.367 PPfold(seed): 0.097 Sensitivity RNAshapes: 0.285 PPfold(seed): 0.012 Positive Predictive Value RNAshapes: 0.474 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Carnac(seed) Matthews Correlation Coefficient RNAshapes: 0.367 Carnac(seed): 0.093 Sensitivity RNAshapes: 0.285 Carnac(seed): 0.010 Positive Predictive Value RNAshapes: 0.474 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs RNASampler(seed) Matthews Correlation Coefficient RNAshapes: 0.367 RNASampler(seed): 0.088 Sensitivity RNAshapes: 0.285 RNASampler(seed): 0.009 Positive Predictive Value RNAshapes: 0.474 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Mastr(seed) Matthews Correlation Coefficient RNAshapes: 0.367 Mastr(seed): 0.072 Sensitivity RNAshapes: 0.285 Mastr(seed): 0.006 Positive Predictive Value RNAshapes: 0.474 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs NanoFolder Matthews Correlation Coefficient RNAshapes: 0.367 NanoFolder: 0.068 Sensitivity RNAshapes: 0.285 NanoFolder: 0.027 Positive Predictive Value RNAshapes: 0.474 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAshapes vs Multilign(seed) Matthews Correlation Coefficient RNAshapes: 0.367 Multilign(seed): 0.059 Sensitivity RNAshapes: 0.285 Multilign(seed): 0.005 Positive Predictive Value RNAshapes: 0.474 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
RNASLOpt	1242 ContextFold vs RNASLOpt Matthews Correlation Coefficient ContextFold: 0.754 RNASLOpt: 0.364 Sensitivity ContextFold: 0.717 RNASLOpt: 0.261 Positive Predictive Value ContextFold: 0.794 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs RNASLOpt Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RNASLOpt: 0.364 Sensitivity PETfold_pre2.0(seed): 0.667 RNASLOpt: 0.261 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs RNASLOpt Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RNASLOpt: 0.364 Sensitivity CentroidAlifold(seed): 0.414 RNASLOpt: 0.261 Positive Predictive Value CentroidAlifold(seed): 0.901 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs RNASLOpt Matthews Correlation Coefficient IPknot: 0.607 RNASLOpt: 0.364 Sensitivity IPknot: 0.551 RNASLOpt: 0.261 Positive Predictive Value IPknot: 0.670 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs RNASLOpt Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RNASLOpt: 0.364 Sensitivity PETfold_pre2.0(20): 0.410 RNASLOpt: 0.261 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs RNASLOpt Matthews Correlation Coefficient CentroidFold: 0.571 RNASLOpt: 0.364 Sensitivity CentroidFold: 0.515 RNASLOpt: 0.261 Positive Predictive Value CentroidFold: 0.633 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs RNASLOpt Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RNASLOpt: 0.364 Sensitivity CentroidAlifold(20): 0.369 RNASLOpt: 0.261 Positive Predictive Value CentroidAlifold(20): 0.891 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs RNASLOpt Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RNASLOpt: 0.364 Sensitivity CentroidHomfold‑LAST: 0.359 RNASLOpt: 0.261 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs RNASLOpt Matthews Correlation Coefficient Contrafold: 0.556 RNASLOpt: 0.364 Sensitivity Contrafold: 0.542 RNASLOpt: 0.261 Positive Predictive Value Contrafold: 0.571 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs RNASLOpt Matthews Correlation Coefficient MXScarna(seed): 0.536 RNASLOpt: 0.364 Sensitivity MXScarna(seed): 0.382 RNASLOpt: 0.261 Positive Predictive Value MXScarna(seed): 0.753 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs RNASLOpt Matthews Correlation Coefficient RNAalifold(20): 0.532 RNASLOpt: 0.364 Sensitivity RNAalifold(20): 0.359 RNASLOpt: 0.261 Positive Predictive Value RNAalifold(20): 0.787 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs RNASLOpt Matthews Correlation Coefficient Sfold: 0.527 RNASLOpt: 0.364 Sensitivity Sfold: 0.477 RNASLOpt: 0.261 Positive Predictive Value Sfold: 0.582 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs RNASLOpt Matthews Correlation Coefficient RNAalifold(seed): 0.523 RNASLOpt: 0.364 Sensitivity RNAalifold(seed): 0.328 RNASLOpt: 0.261 Positive Predictive Value RNAalifold(seed): 0.835 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs RNASLOpt Matthews Correlation Coefficient MaxExpect: 0.516 RNASLOpt: 0.364 Sensitivity MaxExpect: 0.505 RNASLOpt: 0.261 Positive Predictive Value MaxExpect: 0.528 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs RNASLOpt Matthews Correlation Coefficient ProbKnot: 0.512 RNASLOpt: 0.364 Sensitivity ProbKnot: 0.508 RNASLOpt: 0.261 Positive Predictive Value ProbKnot: 0.517 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs RNASLOpt Matthews Correlation Coefficient MXScarna(20): 0.500 RNASLOpt: 0.364 Sensitivity MXScarna(20): 0.353 RNASLOpt: 0.261 Positive Predictive Value MXScarna(20): 0.710 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs RNASLOpt Matthews Correlation Coefficient UNAFold: 0.494 RNASLOpt: 0.364 Sensitivity UNAFold: 0.491 RNASLOpt: 0.261 Positive Predictive Value UNAFold: 0.498 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs RNASLOpt Matthews Correlation Coefficient Fold: 0.493 RNASLOpt: 0.364 Sensitivity Fold: 0.496 RNASLOpt: 0.261 Positive Predictive Value Fold: 0.490 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs RNASLOpt Matthews Correlation Coefficient RNAfold: 0.485 RNASLOpt: 0.364 Sensitivity RNAfold: 0.486 RNASLOpt: 0.261 Positive Predictive Value RNAfold: 0.485 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs RNASLOpt Matthews Correlation Coefficient PknotsRG: 0.474 RNASLOpt: 0.364 Sensitivity PknotsRG: 0.440 RNASLOpt: 0.261 Positive Predictive Value PknotsRG: 0.510 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs RNASLOpt Matthews Correlation Coefficient CRWrnafold: 0.430 RNASLOpt: 0.364 Sensitivity CRWrnafold: 0.379 RNASLOpt: 0.261 Positive Predictive Value CRWrnafold: 0.490 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs RNASLOpt Matthews Correlation Coefficient RNAsubopt: 0.422 RNASLOpt: 0.364 Sensitivity RNAsubopt: 0.344 RNASLOpt: 0.261 Positive Predictive Value RNAsubopt: 0.519 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs RNASLOpt Matthews Correlation Coefficient TurboFold(20): 0.419 RNASLOpt: 0.364 Sensitivity TurboFold(20): 0.210 RNASLOpt: 0.261 Positive Predictive Value TurboFold(20): 0.837 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs RNASLOpt Matthews Correlation Coefficient PPfold(20): 0.416 RNASLOpt: 0.364 Sensitivity PPfold(20): 0.197 RNASLOpt: 0.261 Positive Predictive Value PPfold(20): 0.879 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs RNASLOpt Matthews Correlation Coefficient Afold: 0.408 RNASLOpt: 0.364 Sensitivity Afold: 0.343 RNASLOpt: 0.261 Positive Predictive Value Afold: 0.487 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs RNASLOpt Matthews Correlation Coefficient Carnac(20): 0.401 RNASLOpt: 0.364 Sensitivity Carnac(20): 0.180 RNASLOpt: 0.261 Positive Predictive Value Carnac(20): 0.892 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs RNASLOpt Matthews Correlation Coefficient McQFold: 0.389 RNASLOpt: 0.364 Sensitivity McQFold: 0.308 RNASLOpt: 0.261 Positive Predictive Value McQFold: 0.492 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs RNASLOpt Matthews Correlation Coefficient RSpredict(20): 0.377 RNASLOpt: 0.364 Sensitivity RSpredict(20): 0.241 RNASLOpt: 0.261 Positive Predictive Value RSpredict(20): 0.590 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs RNASLOpt Matthews Correlation Coefficient RNAshapes: 0.367 RNASLOpt: 0.364 Sensitivity RNAshapes: 0.285 RNASLOpt: 0.261 Positive Predictive Value RNAshapes: 0.474 RNASLOpt: 0.510 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 7.04732813174e-08		+ RNASLOpt vs Multilign(20) Matthews Correlation Coefficient RNASLOpt: 0.364 Multilign(20): 0.350 Sensitivity RNASLOpt: 0.261 Multilign(20): 0.161 Positive Predictive Value RNASLOpt: 0.510 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Murlet(20) Matthews Correlation Coefficient RNASLOpt: 0.364 Murlet(20): 0.321 Sensitivity RNASLOpt: 0.261 Murlet(20): 0.131 Positive Predictive Value RNASLOpt: 0.510 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs RNAwolf Matthews Correlation Coefficient RNASLOpt: 0.364 RNAwolf: 0.310 Sensitivity RNASLOpt: 0.261 RNAwolf: 0.261 Positive Predictive Value RNASLOpt: 0.510 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs RSpredict(seed) Matthews Correlation Coefficient RNASLOpt: 0.364 RSpredict(seed): 0.295 Sensitivity RNASLOpt: 0.261 RSpredict(seed): 0.146 Positive Predictive Value RNASLOpt: 0.510 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs CMfinder(20) Matthews Correlation Coefficient RNASLOpt: 0.364 CMfinder(20): 0.292 Sensitivity RNASLOpt: 0.261 CMfinder(20): 0.107 Positive Predictive Value RNASLOpt: 0.510 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Vsfold4 Matthews Correlation Coefficient RNASLOpt: 0.364 Vsfold4: 0.270 Sensitivity RNASLOpt: 0.261 Vsfold4: 0.198 Positive Predictive Value RNASLOpt: 0.510 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Vsfold5 Matthews Correlation Coefficient RNASLOpt: 0.364 Vsfold5: 0.260 Sensitivity RNASLOpt: 0.261 Vsfold5: 0.195 Positive Predictive Value RNASLOpt: 0.510 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs RNASampler(20) Matthews Correlation Coefficient RNASLOpt: 0.364 RNASampler(20): 0.246 Sensitivity RNASLOpt: 0.261 RNASampler(20): 0.069 Positive Predictive Value RNASLOpt: 0.510 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs HotKnots Matthews Correlation Coefficient RNASLOpt: 0.364 HotKnots: 0.212 Sensitivity RNASLOpt: 0.261 HotKnots: 0.069 Positive Predictive Value RNASLOpt: 0.510 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Mastr(20) Matthews Correlation Coefficient RNASLOpt: 0.364 Mastr(20): 0.187 Sensitivity RNASLOpt: 0.261 Mastr(20): 0.044 Positive Predictive Value RNASLOpt: 0.510 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Cylofold Matthews Correlation Coefficient RNASLOpt: 0.364 Cylofold: 0.178 Sensitivity RNASLOpt: 0.261 Cylofold: 0.053 Positive Predictive Value RNASLOpt: 0.510 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Pknots Matthews Correlation Coefficient RNASLOpt: 0.364 Pknots: 0.165 Sensitivity RNASLOpt: 0.261 Pknots: 0.041 Positive Predictive Value RNASLOpt: 0.510 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Alterna Matthews Correlation Coefficient RNASLOpt: 0.364 Alterna: 0.145 Sensitivity RNASLOpt: 0.261 Alterna: 0.036 Positive Predictive Value RNASLOpt: 0.510 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs MCFold Matthews Correlation Coefficient RNASLOpt: 0.364 MCFold: 0.138 Sensitivity RNASLOpt: 0.261 MCFold: 0.044 Positive Predictive Value RNASLOpt: 0.510 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs RDfolder Matthews Correlation Coefficient RNASLOpt: 0.364 RDfolder: 0.138 Sensitivity RNASLOpt: 0.261 RDfolder: 0.031 Positive Predictive Value RNASLOpt: 0.510 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Murlet(seed) Matthews Correlation Coefficient RNASLOpt: 0.364 Murlet(seed): 0.110 Sensitivity RNASLOpt: 0.261 Murlet(seed): 0.015 Positive Predictive Value RNASLOpt: 0.510 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs CMfinder(seed) Matthews Correlation Coefficient RNASLOpt: 0.364 CMfinder(seed): 0.111 Sensitivity RNASLOpt: 0.261 CMfinder(seed): 0.016 Positive Predictive Value RNASLOpt: 0.510 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs TurboFold(seed) Matthews Correlation Coefficient RNASLOpt: 0.364 TurboFold(seed): 0.106 Sensitivity RNASLOpt: 0.261 TurboFold(seed): 0.014 Positive Predictive Value RNASLOpt: 0.510 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs PPfold(seed) Matthews Correlation Coefficient RNASLOpt: 0.364 PPfold(seed): 0.097 Sensitivity RNASLOpt: 0.261 PPfold(seed): 0.012 Positive Predictive Value RNASLOpt: 0.510 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Carnac(seed) Matthews Correlation Coefficient RNASLOpt: 0.364 Carnac(seed): 0.093 Sensitivity RNASLOpt: 0.261 Carnac(seed): 0.010 Positive Predictive Value RNASLOpt: 0.510 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs RNASampler(seed) Matthews Correlation Coefficient RNASLOpt: 0.364 RNASampler(seed): 0.088 Sensitivity RNASLOpt: 0.261 RNASampler(seed): 0.009 Positive Predictive Value RNASLOpt: 0.510 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Mastr(seed) Matthews Correlation Coefficient RNASLOpt: 0.364 Mastr(seed): 0.072 Sensitivity RNASLOpt: 0.261 Mastr(seed): 0.006 Positive Predictive Value RNASLOpt: 0.510 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs NanoFolder Matthews Correlation Coefficient RNASLOpt: 0.364 NanoFolder: 0.068 Sensitivity RNASLOpt: 0.261 NanoFolder: 0.027 Positive Predictive Value RNASLOpt: 0.510 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASLOpt vs Multilign(seed) Matthews Correlation Coefficient RNASLOpt: 0.364 Multilign(seed): 0.059 Sensitivity RNASLOpt: 0.261 Multilign(seed): 0.005 Positive Predictive Value RNASLOpt: 0.510 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
Multilign(20)	1242 ContextFold vs Multilign(20) Matthews Correlation Coefficient ContextFold: 0.754 Multilign(20): 0.350 Sensitivity ContextFold: 0.717 Multilign(20): 0.161 Positive Predictive Value ContextFold: 0.794 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs Multilign(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Multilign(20): 0.350 Sensitivity PETfold_pre2.0(seed): 0.667 Multilign(20): 0.161 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs Multilign(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Multilign(20): 0.350 Sensitivity CentroidAlifold(seed): 0.414 Multilign(20): 0.161 Positive Predictive Value CentroidAlifold(seed): 0.901 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs Multilign(20) Matthews Correlation Coefficient IPknot: 0.607 Multilign(20): 0.350 Sensitivity IPknot: 0.551 Multilign(20): 0.161 Positive Predictive Value IPknot: 0.670 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs Multilign(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Multilign(20): 0.350 Sensitivity PETfold_pre2.0(20): 0.410 Multilign(20): 0.161 Positive Predictive Value PETfold_pre2.0(20): 0.807 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs Multilign(20) Matthews Correlation Coefficient CentroidFold: 0.571 Multilign(20): 0.350 Sensitivity CentroidFold: 0.515 Multilign(20): 0.161 Positive Predictive Value CentroidFold: 0.633 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs Multilign(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Multilign(20): 0.350 Sensitivity CentroidAlifold(20): 0.369 Multilign(20): 0.161 Positive Predictive Value CentroidAlifold(20): 0.891 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs Multilign(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Multilign(20): 0.350 Sensitivity CentroidHomfold‑LAST: 0.359 Multilign(20): 0.161 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs Multilign(20) Matthews Correlation Coefficient Contrafold: 0.556 Multilign(20): 0.350 Sensitivity Contrafold: 0.542 Multilign(20): 0.161 Positive Predictive Value Contrafold: 0.571 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs Multilign(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 Multilign(20): 0.350 Sensitivity MXScarna(seed): 0.382 Multilign(20): 0.161 Positive Predictive Value MXScarna(seed): 0.753 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs Multilign(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 Multilign(20): 0.350 Sensitivity RNAalifold(20): 0.359 Multilign(20): 0.161 Positive Predictive Value RNAalifold(20): 0.787 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs Multilign(20) Matthews Correlation Coefficient Sfold: 0.527 Multilign(20): 0.350 Sensitivity Sfold: 0.477 Multilign(20): 0.161 Positive Predictive Value Sfold: 0.582 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs Multilign(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 Multilign(20): 0.350 Sensitivity RNAalifold(seed): 0.328 Multilign(20): 0.161 Positive Predictive Value RNAalifold(seed): 0.835 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs Multilign(20) Matthews Correlation Coefficient MaxExpect: 0.516 Multilign(20): 0.350 Sensitivity MaxExpect: 0.505 Multilign(20): 0.161 Positive Predictive Value MaxExpect: 0.528 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs Multilign(20) Matthews Correlation Coefficient ProbKnot: 0.512 Multilign(20): 0.350 Sensitivity ProbKnot: 0.508 Multilign(20): 0.161 Positive Predictive Value ProbKnot: 0.517 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs Multilign(20) Matthews Correlation Coefficient MXScarna(20): 0.500 Multilign(20): 0.350 Sensitivity MXScarna(20): 0.353 Multilign(20): 0.161 Positive Predictive Value MXScarna(20): 0.710 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs Multilign(20) Matthews Correlation Coefficient UNAFold: 0.494 Multilign(20): 0.350 Sensitivity UNAFold: 0.491 Multilign(20): 0.161 Positive Predictive Value UNAFold: 0.498 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs Multilign(20) Matthews Correlation Coefficient Fold: 0.493 Multilign(20): 0.350 Sensitivity Fold: 0.496 Multilign(20): 0.161 Positive Predictive Value Fold: 0.490 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs Multilign(20) Matthews Correlation Coefficient RNAfold: 0.485 Multilign(20): 0.350 Sensitivity RNAfold: 0.486 Multilign(20): 0.161 Positive Predictive Value RNAfold: 0.485 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs Multilign(20) Matthews Correlation Coefficient PknotsRG: 0.474 Multilign(20): 0.350 Sensitivity PknotsRG: 0.440 Multilign(20): 0.161 Positive Predictive Value PknotsRG: 0.510 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs Multilign(20) Matthews Correlation Coefficient CRWrnafold: 0.430 Multilign(20): 0.350 Sensitivity CRWrnafold: 0.379 Multilign(20): 0.161 Positive Predictive Value CRWrnafold: 0.490 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs Multilign(20) Matthews Correlation Coefficient RNAsubopt: 0.422 Multilign(20): 0.350 Sensitivity RNAsubopt: 0.344 Multilign(20): 0.161 Positive Predictive Value RNAsubopt: 0.519 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs Multilign(20) Matthews Correlation Coefficient TurboFold(20): 0.419 Multilign(20): 0.350 Sensitivity TurboFold(20): 0.210 Multilign(20): 0.161 Positive Predictive Value TurboFold(20): 0.837 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs Multilign(20) Matthews Correlation Coefficient PPfold(20): 0.416 Multilign(20): 0.350 Sensitivity PPfold(20): 0.197 Multilign(20): 0.161 Positive Predictive Value PPfold(20): 0.879 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs Multilign(20) Matthews Correlation Coefficient Afold: 0.408 Multilign(20): 0.350 Sensitivity Afold: 0.343 Multilign(20): 0.161 Positive Predictive Value Afold: 0.487 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs Multilign(20) Matthews Correlation Coefficient Carnac(20): 0.401 Multilign(20): 0.350 Sensitivity Carnac(20): 0.180 Multilign(20): 0.161 Positive Predictive Value Carnac(20): 0.892 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs Multilign(20) Matthews Correlation Coefficient McQFold: 0.389 Multilign(20): 0.350 Sensitivity McQFold: 0.308 Multilign(20): 0.161 Positive Predictive Value McQFold: 0.492 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs Multilign(20) Matthews Correlation Coefficient RSpredict(20): 0.377 Multilign(20): 0.350 Sensitivity RSpredict(20): 0.241 Multilign(20): 0.161 Positive Predictive Value RSpredict(20): 0.590 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs Multilign(20) Matthews Correlation Coefficient RNAshapes: 0.367 Multilign(20): 0.350 Sensitivity RNAshapes: 0.285 Multilign(20): 0.161 Positive Predictive Value RNAshapes: 0.474 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs Multilign(20) Matthews Correlation Coefficient RNASLOpt: 0.364 Multilign(20): 0.350 Sensitivity RNASLOpt: 0.261 Multilign(20): 0.161 Positive Predictive Value RNASLOpt: 0.510 Multilign(20): 0.762 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ Multilign(20) vs Murlet(20) Matthews Correlation Coefficient Multilign(20): 0.350 Murlet(20): 0.321 Sensitivity Multilign(20): 0.161 Murlet(20): 0.131 Positive Predictive Value Multilign(20): 0.762 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs RNAwolf Matthews Correlation Coefficient Multilign(20): 0.350 RNAwolf: 0.310 Sensitivity Multilign(20): 0.161 RNAwolf: 0.261 Positive Predictive Value Multilign(20): 0.762 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs RSpredict(seed) Matthews Correlation Coefficient Multilign(20): 0.350 RSpredict(seed): 0.295 Sensitivity Multilign(20): 0.161 RSpredict(seed): 0.146 Positive Predictive Value Multilign(20): 0.762 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs CMfinder(20) Matthews Correlation Coefficient Multilign(20): 0.350 CMfinder(20): 0.292 Sensitivity Multilign(20): 0.161 CMfinder(20): 0.107 Positive Predictive Value Multilign(20): 0.762 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Vsfold4 Matthews Correlation Coefficient Multilign(20): 0.350 Vsfold4: 0.270 Sensitivity Multilign(20): 0.161 Vsfold4: 0.198 Positive Predictive Value Multilign(20): 0.762 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Vsfold5 Matthews Correlation Coefficient Multilign(20): 0.350 Vsfold5: 0.260 Sensitivity Multilign(20): 0.161 Vsfold5: 0.195 Positive Predictive Value Multilign(20): 0.762 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs RNASampler(20) Matthews Correlation Coefficient Multilign(20): 0.350 RNASampler(20): 0.246 Sensitivity Multilign(20): 0.161 RNASampler(20): 0.069 Positive Predictive Value Multilign(20): 0.762 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs HotKnots Matthews Correlation Coefficient Multilign(20): 0.350 HotKnots: 0.212 Sensitivity Multilign(20): 0.161 HotKnots: 0.069 Positive Predictive Value Multilign(20): 0.762 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Mastr(20) Matthews Correlation Coefficient Multilign(20): 0.350 Mastr(20): 0.187 Sensitivity Multilign(20): 0.161 Mastr(20): 0.044 Positive Predictive Value Multilign(20): 0.762 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Cylofold Matthews Correlation Coefficient Multilign(20): 0.350 Cylofold: 0.178 Sensitivity Multilign(20): 0.161 Cylofold: 0.053 Positive Predictive Value Multilign(20): 0.762 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Pknots Matthews Correlation Coefficient Multilign(20): 0.350 Pknots: 0.165 Sensitivity Multilign(20): 0.161 Pknots: 0.041 Positive Predictive Value Multilign(20): 0.762 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Alterna Matthews Correlation Coefficient Multilign(20): 0.350 Alterna: 0.145 Sensitivity Multilign(20): 0.161 Alterna: 0.036 Positive Predictive Value Multilign(20): 0.762 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs MCFold Matthews Correlation Coefficient Multilign(20): 0.350 MCFold: 0.138 Sensitivity Multilign(20): 0.161 MCFold: 0.044 Positive Predictive Value Multilign(20): 0.762 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs RDfolder Matthews Correlation Coefficient Multilign(20): 0.350 RDfolder: 0.138 Sensitivity Multilign(20): 0.161 RDfolder: 0.031 Positive Predictive Value Multilign(20): 0.762 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Murlet(seed) Matthews Correlation Coefficient Multilign(20): 0.350 Murlet(seed): 0.110 Sensitivity Multilign(20): 0.161 Murlet(seed): 0.015 Positive Predictive Value Multilign(20): 0.762 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs CMfinder(seed) Matthews Correlation Coefficient Multilign(20): 0.350 CMfinder(seed): 0.111 Sensitivity Multilign(20): 0.161 CMfinder(seed): 0.016 Positive Predictive Value Multilign(20): 0.762 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs TurboFold(seed) Matthews Correlation Coefficient Multilign(20): 0.350 TurboFold(seed): 0.106 Sensitivity Multilign(20): 0.161 TurboFold(seed): 0.014 Positive Predictive Value Multilign(20): 0.762 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs PPfold(seed) Matthews Correlation Coefficient Multilign(20): 0.350 PPfold(seed): 0.097 Sensitivity Multilign(20): 0.161 PPfold(seed): 0.012 Positive Predictive Value Multilign(20): 0.762 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Carnac(seed) Matthews Correlation Coefficient Multilign(20): 0.350 Carnac(seed): 0.093 Sensitivity Multilign(20): 0.161 Carnac(seed): 0.010 Positive Predictive Value Multilign(20): 0.762 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs RNASampler(seed) Matthews Correlation Coefficient Multilign(20): 0.350 RNASampler(seed): 0.088 Sensitivity Multilign(20): 0.161 RNASampler(seed): 0.009 Positive Predictive Value Multilign(20): 0.762 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Mastr(seed) Matthews Correlation Coefficient Multilign(20): 0.350 Mastr(seed): 0.072 Sensitivity Multilign(20): 0.161 Mastr(seed): 0.006 Positive Predictive Value Multilign(20): 0.762 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs NanoFolder Matthews Correlation Coefficient Multilign(20): 0.350 NanoFolder: 0.068 Sensitivity Multilign(20): 0.161 NanoFolder: 0.027 Positive Predictive Value Multilign(20): 0.762 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Multilign(20) vs Multilign(seed) Matthews Correlation Coefficient Multilign(20): 0.350 Multilign(seed): 0.059 Sensitivity Multilign(20): 0.161 Multilign(seed): 0.005 Positive Predictive Value Multilign(20): 0.762 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
Murlet(20)	1242 ContextFold vs Murlet(20) Matthews Correlation Coefficient ContextFold: 0.754 Murlet(20): 0.321 Sensitivity ContextFold: 0.717 Murlet(20): 0.131 Positive Predictive Value ContextFold: 0.794 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs Murlet(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Murlet(20): 0.321 Sensitivity PETfold_pre2.0(seed): 0.667 Murlet(20): 0.131 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs Murlet(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Murlet(20): 0.321 Sensitivity CentroidAlifold(seed): 0.414 Murlet(20): 0.131 Positive Predictive Value CentroidAlifold(seed): 0.901 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs Murlet(20) Matthews Correlation Coefficient IPknot: 0.607 Murlet(20): 0.321 Sensitivity IPknot: 0.551 Murlet(20): 0.131 Positive Predictive Value IPknot: 0.670 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs Murlet(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Murlet(20): 0.321 Sensitivity PETfold_pre2.0(20): 0.410 Murlet(20): 0.131 Positive Predictive Value PETfold_pre2.0(20): 0.807 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs Murlet(20) Matthews Correlation Coefficient CentroidFold: 0.571 Murlet(20): 0.321 Sensitivity CentroidFold: 0.515 Murlet(20): 0.131 Positive Predictive Value CentroidFold: 0.633 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs Murlet(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Murlet(20): 0.321 Sensitivity CentroidAlifold(20): 0.369 Murlet(20): 0.131 Positive Predictive Value CentroidAlifold(20): 0.891 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs Murlet(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Murlet(20): 0.321 Sensitivity CentroidHomfold‑LAST: 0.359 Murlet(20): 0.131 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs Murlet(20) Matthews Correlation Coefficient Contrafold: 0.556 Murlet(20): 0.321 Sensitivity Contrafold: 0.542 Murlet(20): 0.131 Positive Predictive Value Contrafold: 0.571 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs Murlet(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 Murlet(20): 0.321 Sensitivity MXScarna(seed): 0.382 Murlet(20): 0.131 Positive Predictive Value MXScarna(seed): 0.753 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs Murlet(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 Murlet(20): 0.321 Sensitivity RNAalifold(20): 0.359 Murlet(20): 0.131 Positive Predictive Value RNAalifold(20): 0.787 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs Murlet(20) Matthews Correlation Coefficient Sfold: 0.527 Murlet(20): 0.321 Sensitivity Sfold: 0.477 Murlet(20): 0.131 Positive Predictive Value Sfold: 0.582 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs Murlet(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 Murlet(20): 0.321 Sensitivity RNAalifold(seed): 0.328 Murlet(20): 0.131 Positive Predictive Value RNAalifold(seed): 0.835 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs Murlet(20) Matthews Correlation Coefficient MaxExpect: 0.516 Murlet(20): 0.321 Sensitivity MaxExpect: 0.505 Murlet(20): 0.131 Positive Predictive Value MaxExpect: 0.528 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs Murlet(20) Matthews Correlation Coefficient ProbKnot: 0.512 Murlet(20): 0.321 Sensitivity ProbKnot: 0.508 Murlet(20): 0.131 Positive Predictive Value ProbKnot: 0.517 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs Murlet(20) Matthews Correlation Coefficient MXScarna(20): 0.500 Murlet(20): 0.321 Sensitivity MXScarna(20): 0.353 Murlet(20): 0.131 Positive Predictive Value MXScarna(20): 0.710 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs Murlet(20) Matthews Correlation Coefficient UNAFold: 0.494 Murlet(20): 0.321 Sensitivity UNAFold: 0.491 Murlet(20): 0.131 Positive Predictive Value UNAFold: 0.498 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs Murlet(20) Matthews Correlation Coefficient Fold: 0.493 Murlet(20): 0.321 Sensitivity Fold: 0.496 Murlet(20): 0.131 Positive Predictive Value Fold: 0.490 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs Murlet(20) Matthews Correlation Coefficient RNAfold: 0.485 Murlet(20): 0.321 Sensitivity RNAfold: 0.486 Murlet(20): 0.131 Positive Predictive Value RNAfold: 0.485 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs Murlet(20) Matthews Correlation Coefficient PknotsRG: 0.474 Murlet(20): 0.321 Sensitivity PknotsRG: 0.440 Murlet(20): 0.131 Positive Predictive Value PknotsRG: 0.510 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs Murlet(20) Matthews Correlation Coefficient CRWrnafold: 0.430 Murlet(20): 0.321 Sensitivity CRWrnafold: 0.379 Murlet(20): 0.131 Positive Predictive Value CRWrnafold: 0.490 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs Murlet(20) Matthews Correlation Coefficient RNAsubopt: 0.422 Murlet(20): 0.321 Sensitivity RNAsubopt: 0.344 Murlet(20): 0.131 Positive Predictive Value RNAsubopt: 0.519 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs Murlet(20) Matthews Correlation Coefficient TurboFold(20): 0.419 Murlet(20): 0.321 Sensitivity TurboFold(20): 0.210 Murlet(20): 0.131 Positive Predictive Value TurboFold(20): 0.837 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs Murlet(20) Matthews Correlation Coefficient PPfold(20): 0.416 Murlet(20): 0.321 Sensitivity PPfold(20): 0.197 Murlet(20): 0.131 Positive Predictive Value PPfold(20): 0.879 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs Murlet(20) Matthews Correlation Coefficient Afold: 0.408 Murlet(20): 0.321 Sensitivity Afold: 0.343 Murlet(20): 0.131 Positive Predictive Value Afold: 0.487 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs Murlet(20) Matthews Correlation Coefficient Carnac(20): 0.401 Murlet(20): 0.321 Sensitivity Carnac(20): 0.180 Murlet(20): 0.131 Positive Predictive Value Carnac(20): 0.892 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs Murlet(20) Matthews Correlation Coefficient McQFold: 0.389 Murlet(20): 0.321 Sensitivity McQFold: 0.308 Murlet(20): 0.131 Positive Predictive Value McQFold: 0.492 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs Murlet(20) Matthews Correlation Coefficient RSpredict(20): 0.377 Murlet(20): 0.321 Sensitivity RSpredict(20): 0.241 Murlet(20): 0.131 Positive Predictive Value RSpredict(20): 0.590 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs Murlet(20) Matthews Correlation Coefficient RNAshapes: 0.367 Murlet(20): 0.321 Sensitivity RNAshapes: 0.285 Murlet(20): 0.131 Positive Predictive Value RNAshapes: 0.474 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs Murlet(20) Matthews Correlation Coefficient RNASLOpt: 0.364 Murlet(20): 0.321 Sensitivity RNASLOpt: 0.261 Murlet(20): 0.131 Positive Predictive Value RNASLOpt: 0.510 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs Murlet(20) Matthews Correlation Coefficient Multilign(20): 0.350 Murlet(20): 0.321 Sensitivity Multilign(20): 0.161 Murlet(20): 0.131 Positive Predictive Value Multilign(20): 0.762 Murlet(20): 0.787 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ Murlet(20) vs RNAwolf Matthews Correlation Coefficient Murlet(20): 0.321 RNAwolf: 0.310 Sensitivity Murlet(20): 0.131 RNAwolf: 0.261 Positive Predictive Value Murlet(20): 0.787 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs RSpredict(seed) Matthews Correlation Coefficient Murlet(20): 0.321 RSpredict(seed): 0.295 Sensitivity Murlet(20): 0.131 RSpredict(seed): 0.146 Positive Predictive Value Murlet(20): 0.787 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs CMfinder(20) Matthews Correlation Coefficient Murlet(20): 0.321 CMfinder(20): 0.292 Sensitivity Murlet(20): 0.131 CMfinder(20): 0.107 Positive Predictive Value Murlet(20): 0.787 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Vsfold4 Matthews Correlation Coefficient Murlet(20): 0.321 Vsfold4: 0.270 Sensitivity Murlet(20): 0.131 Vsfold4: 0.198 Positive Predictive Value Murlet(20): 0.787 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Vsfold5 Matthews Correlation Coefficient Murlet(20): 0.321 Vsfold5: 0.260 Sensitivity Murlet(20): 0.131 Vsfold5: 0.195 Positive Predictive Value Murlet(20): 0.787 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs RNASampler(20) Matthews Correlation Coefficient Murlet(20): 0.321 RNASampler(20): 0.246 Sensitivity Murlet(20): 0.131 RNASampler(20): 0.069 Positive Predictive Value Murlet(20): 0.787 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs HotKnots Matthews Correlation Coefficient Murlet(20): 0.321 HotKnots: 0.212 Sensitivity Murlet(20): 0.131 HotKnots: 0.069 Positive Predictive Value Murlet(20): 0.787 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Mastr(20) Matthews Correlation Coefficient Murlet(20): 0.321 Mastr(20): 0.187 Sensitivity Murlet(20): 0.131 Mastr(20): 0.044 Positive Predictive Value Murlet(20): 0.787 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Cylofold Matthews Correlation Coefficient Murlet(20): 0.321 Cylofold: 0.178 Sensitivity Murlet(20): 0.131 Cylofold: 0.053 Positive Predictive Value Murlet(20): 0.787 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Pknots Matthews Correlation Coefficient Murlet(20): 0.321 Pknots: 0.165 Sensitivity Murlet(20): 0.131 Pknots: 0.041 Positive Predictive Value Murlet(20): 0.787 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Alterna Matthews Correlation Coefficient Murlet(20): 0.321 Alterna: 0.145 Sensitivity Murlet(20): 0.131 Alterna: 0.036 Positive Predictive Value Murlet(20): 0.787 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs MCFold Matthews Correlation Coefficient Murlet(20): 0.321 MCFold: 0.138 Sensitivity Murlet(20): 0.131 MCFold: 0.044 Positive Predictive Value Murlet(20): 0.787 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs RDfolder Matthews Correlation Coefficient Murlet(20): 0.321 RDfolder: 0.138 Sensitivity Murlet(20): 0.131 RDfolder: 0.031 Positive Predictive Value Murlet(20): 0.787 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Murlet(seed) Matthews Correlation Coefficient Murlet(20): 0.321 Murlet(seed): 0.110 Sensitivity Murlet(20): 0.131 Murlet(seed): 0.015 Positive Predictive Value Murlet(20): 0.787 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs CMfinder(seed) Matthews Correlation Coefficient Murlet(20): 0.321 CMfinder(seed): 0.111 Sensitivity Murlet(20): 0.131 CMfinder(seed): 0.016 Positive Predictive Value Murlet(20): 0.787 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs TurboFold(seed) Matthews Correlation Coefficient Murlet(20): 0.321 TurboFold(seed): 0.106 Sensitivity Murlet(20): 0.131 TurboFold(seed): 0.014 Positive Predictive Value Murlet(20): 0.787 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs PPfold(seed) Matthews Correlation Coefficient Murlet(20): 0.321 PPfold(seed): 0.097 Sensitivity Murlet(20): 0.131 PPfold(seed): 0.012 Positive Predictive Value Murlet(20): 0.787 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Carnac(seed) Matthews Correlation Coefficient Murlet(20): 0.321 Carnac(seed): 0.093 Sensitivity Murlet(20): 0.131 Carnac(seed): 0.010 Positive Predictive Value Murlet(20): 0.787 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs RNASampler(seed) Matthews Correlation Coefficient Murlet(20): 0.321 RNASampler(seed): 0.088 Sensitivity Murlet(20): 0.131 RNASampler(seed): 0.009 Positive Predictive Value Murlet(20): 0.787 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Mastr(seed) Matthews Correlation Coefficient Murlet(20): 0.321 Mastr(seed): 0.072 Sensitivity Murlet(20): 0.131 Mastr(seed): 0.006 Positive Predictive Value Murlet(20): 0.787 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs NanoFolder Matthews Correlation Coefficient Murlet(20): 0.321 NanoFolder: 0.068 Sensitivity Murlet(20): 0.131 NanoFolder: 0.027 Positive Predictive Value Murlet(20): 0.787 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(20) vs Multilign(seed) Matthews Correlation Coefficient Murlet(20): 0.321 Multilign(seed): 0.059 Sensitivity Murlet(20): 0.131 Multilign(seed): 0.005 Positive Predictive Value Murlet(20): 0.787 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
RNAwolf	1242 ContextFold vs RNAwolf Matthews Correlation Coefficient ContextFold: 0.754 RNAwolf: 0.310 Sensitivity ContextFold: 0.717 RNAwolf: 0.261 Positive Predictive Value ContextFold: 0.794 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs RNAwolf Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RNAwolf: 0.310 Sensitivity PETfold_pre2.0(seed): 0.667 RNAwolf: 0.261 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs RNAwolf Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RNAwolf: 0.310 Sensitivity CentroidAlifold(seed): 0.414 RNAwolf: 0.261 Positive Predictive Value CentroidAlifold(seed): 0.901 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs RNAwolf Matthews Correlation Coefficient IPknot: 0.607 RNAwolf: 0.310 Sensitivity IPknot: 0.551 RNAwolf: 0.261 Positive Predictive Value IPknot: 0.670 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs RNAwolf Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RNAwolf: 0.310 Sensitivity PETfold_pre2.0(20): 0.410 RNAwolf: 0.261 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs RNAwolf Matthews Correlation Coefficient CentroidFold: 0.571 RNAwolf: 0.310 Sensitivity CentroidFold: 0.515 RNAwolf: 0.261 Positive Predictive Value CentroidFold: 0.633 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs RNAwolf Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RNAwolf: 0.310 Sensitivity CentroidAlifold(20): 0.369 RNAwolf: 0.261 Positive Predictive Value CentroidAlifold(20): 0.891 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs RNAwolf Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RNAwolf: 0.310 Sensitivity CentroidHomfold‑LAST: 0.359 RNAwolf: 0.261 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs RNAwolf Matthews Correlation Coefficient Contrafold: 0.556 RNAwolf: 0.310 Sensitivity Contrafold: 0.542 RNAwolf: 0.261 Positive Predictive Value Contrafold: 0.571 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs RNAwolf Matthews Correlation Coefficient MXScarna(seed): 0.536 RNAwolf: 0.310 Sensitivity MXScarna(seed): 0.382 RNAwolf: 0.261 Positive Predictive Value MXScarna(seed): 0.753 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs RNAwolf Matthews Correlation Coefficient RNAalifold(20): 0.532 RNAwolf: 0.310 Sensitivity RNAalifold(20): 0.359 RNAwolf: 0.261 Positive Predictive Value RNAalifold(20): 0.787 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs RNAwolf Matthews Correlation Coefficient Sfold: 0.527 RNAwolf: 0.310 Sensitivity Sfold: 0.477 RNAwolf: 0.261 Positive Predictive Value Sfold: 0.582 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs RNAwolf Matthews Correlation Coefficient RNAalifold(seed): 0.523 RNAwolf: 0.310 Sensitivity RNAalifold(seed): 0.328 RNAwolf: 0.261 Positive Predictive Value RNAalifold(seed): 0.835 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs RNAwolf Matthews Correlation Coefficient MaxExpect: 0.516 RNAwolf: 0.310 Sensitivity MaxExpect: 0.505 RNAwolf: 0.261 Positive Predictive Value MaxExpect: 0.528 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs RNAwolf Matthews Correlation Coefficient ProbKnot: 0.512 RNAwolf: 0.310 Sensitivity ProbKnot: 0.508 RNAwolf: 0.261 Positive Predictive Value ProbKnot: 0.517 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs RNAwolf Matthews Correlation Coefficient MXScarna(20): 0.500 RNAwolf: 0.310 Sensitivity MXScarna(20): 0.353 RNAwolf: 0.261 Positive Predictive Value MXScarna(20): 0.710 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs RNAwolf Matthews Correlation Coefficient UNAFold: 0.494 RNAwolf: 0.310 Sensitivity UNAFold: 0.491 RNAwolf: 0.261 Positive Predictive Value UNAFold: 0.498 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs RNAwolf Matthews Correlation Coefficient Fold: 0.493 RNAwolf: 0.310 Sensitivity Fold: 0.496 RNAwolf: 0.261 Positive Predictive Value Fold: 0.490 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs RNAwolf Matthews Correlation Coefficient RNAfold: 0.485 RNAwolf: 0.310 Sensitivity RNAfold: 0.486 RNAwolf: 0.261 Positive Predictive Value RNAfold: 0.485 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs RNAwolf Matthews Correlation Coefficient PknotsRG: 0.474 RNAwolf: 0.310 Sensitivity PknotsRG: 0.440 RNAwolf: 0.261 Positive Predictive Value PknotsRG: 0.510 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs RNAwolf Matthews Correlation Coefficient CRWrnafold: 0.430 RNAwolf: 0.310 Sensitivity CRWrnafold: 0.379 RNAwolf: 0.261 Positive Predictive Value CRWrnafold: 0.490 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs RNAwolf Matthews Correlation Coefficient RNAsubopt: 0.422 RNAwolf: 0.310 Sensitivity RNAsubopt: 0.344 RNAwolf: 0.261 Positive Predictive Value RNAsubopt: 0.519 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs RNAwolf Matthews Correlation Coefficient TurboFold(20): 0.419 RNAwolf: 0.310 Sensitivity TurboFold(20): 0.210 RNAwolf: 0.261 Positive Predictive Value TurboFold(20): 0.837 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs RNAwolf Matthews Correlation Coefficient PPfold(20): 0.416 RNAwolf: 0.310 Sensitivity PPfold(20): 0.197 RNAwolf: 0.261 Positive Predictive Value PPfold(20): 0.879 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs RNAwolf Matthews Correlation Coefficient Afold: 0.408 RNAwolf: 0.310 Sensitivity Afold: 0.343 RNAwolf: 0.261 Positive Predictive Value Afold: 0.487 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs RNAwolf Matthews Correlation Coefficient Carnac(20): 0.401 RNAwolf: 0.310 Sensitivity Carnac(20): 0.180 RNAwolf: 0.261 Positive Predictive Value Carnac(20): 0.892 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs RNAwolf Matthews Correlation Coefficient McQFold: 0.389 RNAwolf: 0.310 Sensitivity McQFold: 0.308 RNAwolf: 0.261 Positive Predictive Value McQFold: 0.492 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs RNAwolf Matthews Correlation Coefficient RSpredict(20): 0.377 RNAwolf: 0.310 Sensitivity RSpredict(20): 0.241 RNAwolf: 0.261 Positive Predictive Value RSpredict(20): 0.590 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs RNAwolf Matthews Correlation Coefficient RNAshapes: 0.367 RNAwolf: 0.310 Sensitivity RNAshapes: 0.285 RNAwolf: 0.261 Positive Predictive Value RNAshapes: 0.474 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs RNAwolf Matthews Correlation Coefficient RNASLOpt: 0.364 RNAwolf: 0.310 Sensitivity RNASLOpt: 0.261 RNAwolf: 0.261 Positive Predictive Value RNASLOpt: 0.510 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs RNAwolf Matthews Correlation Coefficient Multilign(20): 0.350 RNAwolf: 0.310 Sensitivity Multilign(20): 0.161 RNAwolf: 0.261 Positive Predictive Value Multilign(20): 0.762 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs RNAwolf Matthews Correlation Coefficient Murlet(20): 0.321 RNAwolf: 0.310 Sensitivity Murlet(20): 0.131 RNAwolf: 0.261 Positive Predictive Value Murlet(20): 0.787 RNAwolf: 0.369 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ RNAwolf vs RSpredict(seed) Matthews Correlation Coefficient RNAwolf: 0.310 RSpredict(seed): 0.295 Sensitivity RNAwolf: 0.261 RSpredict(seed): 0.146 Positive Predictive Value RNAwolf: 0.369 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs CMfinder(20) Matthews Correlation Coefficient RNAwolf: 0.310 CMfinder(20): 0.292 Sensitivity RNAwolf: 0.261 CMfinder(20): 0.107 Positive Predictive Value RNAwolf: 0.369 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Vsfold4 Matthews Correlation Coefficient RNAwolf: 0.310 Vsfold4: 0.270 Sensitivity RNAwolf: 0.261 Vsfold4: 0.198 Positive Predictive Value RNAwolf: 0.369 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Vsfold5 Matthews Correlation Coefficient RNAwolf: 0.310 Vsfold5: 0.260 Sensitivity RNAwolf: 0.261 Vsfold5: 0.195 Positive Predictive Value RNAwolf: 0.369 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs RNASampler(20) Matthews Correlation Coefficient RNAwolf: 0.310 RNASampler(20): 0.246 Sensitivity RNAwolf: 0.261 RNASampler(20): 0.069 Positive Predictive Value RNAwolf: 0.369 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs HotKnots Matthews Correlation Coefficient RNAwolf: 0.310 HotKnots: 0.212 Sensitivity RNAwolf: 0.261 HotKnots: 0.069 Positive Predictive Value RNAwolf: 0.369 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Mastr(20) Matthews Correlation Coefficient RNAwolf: 0.310 Mastr(20): 0.187 Sensitivity RNAwolf: 0.261 Mastr(20): 0.044 Positive Predictive Value RNAwolf: 0.369 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Cylofold Matthews Correlation Coefficient RNAwolf: 0.310 Cylofold: 0.178 Sensitivity RNAwolf: 0.261 Cylofold: 0.053 Positive Predictive Value RNAwolf: 0.369 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Pknots Matthews Correlation Coefficient RNAwolf: 0.310 Pknots: 0.165 Sensitivity RNAwolf: 0.261 Pknots: 0.041 Positive Predictive Value RNAwolf: 0.369 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Alterna Matthews Correlation Coefficient RNAwolf: 0.310 Alterna: 0.145 Sensitivity RNAwolf: 0.261 Alterna: 0.036 Positive Predictive Value RNAwolf: 0.369 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs MCFold Matthews Correlation Coefficient RNAwolf: 0.310 MCFold: 0.138 Sensitivity RNAwolf: 0.261 MCFold: 0.044 Positive Predictive Value RNAwolf: 0.369 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs RDfolder Matthews Correlation Coefficient RNAwolf: 0.310 RDfolder: 0.138 Sensitivity RNAwolf: 0.261 RDfolder: 0.031 Positive Predictive Value RNAwolf: 0.369 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Murlet(seed) Matthews Correlation Coefficient RNAwolf: 0.310 Murlet(seed): 0.110 Sensitivity RNAwolf: 0.261 Murlet(seed): 0.015 Positive Predictive Value RNAwolf: 0.369 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs CMfinder(seed) Matthews Correlation Coefficient RNAwolf: 0.310 CMfinder(seed): 0.111 Sensitivity RNAwolf: 0.261 CMfinder(seed): 0.016 Positive Predictive Value RNAwolf: 0.369 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs TurboFold(seed) Matthews Correlation Coefficient RNAwolf: 0.310 TurboFold(seed): 0.106 Sensitivity RNAwolf: 0.261 TurboFold(seed): 0.014 Positive Predictive Value RNAwolf: 0.369 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs PPfold(seed) Matthews Correlation Coefficient RNAwolf: 0.310 PPfold(seed): 0.097 Sensitivity RNAwolf: 0.261 PPfold(seed): 0.012 Positive Predictive Value RNAwolf: 0.369 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Carnac(seed) Matthews Correlation Coefficient RNAwolf: 0.310 Carnac(seed): 0.093 Sensitivity RNAwolf: 0.261 Carnac(seed): 0.010 Positive Predictive Value RNAwolf: 0.369 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs RNASampler(seed) Matthews Correlation Coefficient RNAwolf: 0.310 RNASampler(seed): 0.088 Sensitivity RNAwolf: 0.261 RNASampler(seed): 0.009 Positive Predictive Value RNAwolf: 0.369 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Mastr(seed) Matthews Correlation Coefficient RNAwolf: 0.310 Mastr(seed): 0.072 Sensitivity RNAwolf: 0.261 Mastr(seed): 0.006 Positive Predictive Value RNAwolf: 0.369 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs NanoFolder Matthews Correlation Coefficient RNAwolf: 0.310 NanoFolder: 0.068 Sensitivity RNAwolf: 0.261 NanoFolder: 0.027 Positive Predictive Value RNAwolf: 0.369 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNAwolf vs Multilign(seed) Matthews Correlation Coefficient RNAwolf: 0.310 Multilign(seed): 0.059 Sensitivity RNAwolf: 0.261 Multilign(seed): 0.005 Positive Predictive Value RNAwolf: 0.369 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
RSpredict(seed)	1242 ContextFold vs RSpredict(seed) Matthews Correlation Coefficient ContextFold: 0.754 RSpredict(seed): 0.295 Sensitivity ContextFold: 0.717 RSpredict(seed): 0.146 Positive Predictive Value ContextFold: 0.794 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs RSpredict(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RSpredict(seed): 0.295 Sensitivity PETfold_pre2.0(seed): 0.667 RSpredict(seed): 0.146 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs RSpredict(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RSpredict(seed): 0.295 Sensitivity CentroidAlifold(seed): 0.414 RSpredict(seed): 0.146 Positive Predictive Value CentroidAlifold(seed): 0.901 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs RSpredict(seed) Matthews Correlation Coefficient IPknot: 0.607 RSpredict(seed): 0.295 Sensitivity IPknot: 0.551 RSpredict(seed): 0.146 Positive Predictive Value IPknot: 0.670 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs RSpredict(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RSpredict(seed): 0.295 Sensitivity PETfold_pre2.0(20): 0.410 RSpredict(seed): 0.146 Positive Predictive Value PETfold_pre2.0(20): 0.807 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs RSpredict(seed) Matthews Correlation Coefficient CentroidFold: 0.571 RSpredict(seed): 0.295 Sensitivity CentroidFold: 0.515 RSpredict(seed): 0.146 Positive Predictive Value CentroidFold: 0.633 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs RSpredict(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RSpredict(seed): 0.295 Sensitivity CentroidAlifold(20): 0.369 RSpredict(seed): 0.146 Positive Predictive Value CentroidAlifold(20): 0.891 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs RSpredict(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RSpredict(seed): 0.295 Sensitivity CentroidHomfold‑LAST: 0.359 RSpredict(seed): 0.146 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs RSpredict(seed) Matthews Correlation Coefficient Contrafold: 0.556 RSpredict(seed): 0.295 Sensitivity Contrafold: 0.542 RSpredict(seed): 0.146 Positive Predictive Value Contrafold: 0.571 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs RSpredict(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 RSpredict(seed): 0.295 Sensitivity MXScarna(seed): 0.382 RSpredict(seed): 0.146 Positive Predictive Value MXScarna(seed): 0.753 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs RSpredict(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 RSpredict(seed): 0.295 Sensitivity RNAalifold(20): 0.359 RSpredict(seed): 0.146 Positive Predictive Value RNAalifold(20): 0.787 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs RSpredict(seed) Matthews Correlation Coefficient Sfold: 0.527 RSpredict(seed): 0.295 Sensitivity Sfold: 0.477 RSpredict(seed): 0.146 Positive Predictive Value Sfold: 0.582 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs RSpredict(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.523 RSpredict(seed): 0.295 Sensitivity RNAalifold(seed): 0.328 RSpredict(seed): 0.146 Positive Predictive Value RNAalifold(seed): 0.835 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs RSpredict(seed) Matthews Correlation Coefficient MaxExpect: 0.516 RSpredict(seed): 0.295 Sensitivity MaxExpect: 0.505 RSpredict(seed): 0.146 Positive Predictive Value MaxExpect: 0.528 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs RSpredict(seed) Matthews Correlation Coefficient ProbKnot: 0.512 RSpredict(seed): 0.295 Sensitivity ProbKnot: 0.508 RSpredict(seed): 0.146 Positive Predictive Value ProbKnot: 0.517 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs RSpredict(seed) Matthews Correlation Coefficient MXScarna(20): 0.500 RSpredict(seed): 0.295 Sensitivity MXScarna(20): 0.353 RSpredict(seed): 0.146 Positive Predictive Value MXScarna(20): 0.710 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs RSpredict(seed) Matthews Correlation Coefficient UNAFold: 0.494 RSpredict(seed): 0.295 Sensitivity UNAFold: 0.491 RSpredict(seed): 0.146 Positive Predictive Value UNAFold: 0.498 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs RSpredict(seed) Matthews Correlation Coefficient Fold: 0.493 RSpredict(seed): 0.295 Sensitivity Fold: 0.496 RSpredict(seed): 0.146 Positive Predictive Value Fold: 0.490 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs RSpredict(seed) Matthews Correlation Coefficient RNAfold: 0.485 RSpredict(seed): 0.295 Sensitivity RNAfold: 0.486 RSpredict(seed): 0.146 Positive Predictive Value RNAfold: 0.485 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs RSpredict(seed) Matthews Correlation Coefficient PknotsRG: 0.474 RSpredict(seed): 0.295 Sensitivity PknotsRG: 0.440 RSpredict(seed): 0.146 Positive Predictive Value PknotsRG: 0.510 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs RSpredict(seed) Matthews Correlation Coefficient CRWrnafold: 0.430 RSpredict(seed): 0.295 Sensitivity CRWrnafold: 0.379 RSpredict(seed): 0.146 Positive Predictive Value CRWrnafold: 0.490 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs RSpredict(seed) Matthews Correlation Coefficient RNAsubopt: 0.422 RSpredict(seed): 0.295 Sensitivity RNAsubopt: 0.344 RSpredict(seed): 0.146 Positive Predictive Value RNAsubopt: 0.519 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs RSpredict(seed) Matthews Correlation Coefficient TurboFold(20): 0.419 RSpredict(seed): 0.295 Sensitivity TurboFold(20): 0.210 RSpredict(seed): 0.146 Positive Predictive Value TurboFold(20): 0.837 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs RSpredict(seed) Matthews Correlation Coefficient PPfold(20): 0.416 RSpredict(seed): 0.295 Sensitivity PPfold(20): 0.197 RSpredict(seed): 0.146 Positive Predictive Value PPfold(20): 0.879 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs RSpredict(seed) Matthews Correlation Coefficient Afold: 0.408 RSpredict(seed): 0.295 Sensitivity Afold: 0.343 RSpredict(seed): 0.146 Positive Predictive Value Afold: 0.487 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs RSpredict(seed) Matthews Correlation Coefficient Carnac(20): 0.401 RSpredict(seed): 0.295 Sensitivity Carnac(20): 0.180 RSpredict(seed): 0.146 Positive Predictive Value Carnac(20): 0.892 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs RSpredict(seed) Matthews Correlation Coefficient McQFold: 0.389 RSpredict(seed): 0.295 Sensitivity McQFold: 0.308 RSpredict(seed): 0.146 Positive Predictive Value McQFold: 0.492 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs RSpredict(seed) Matthews Correlation Coefficient RSpredict(20): 0.377 RSpredict(seed): 0.295 Sensitivity RSpredict(20): 0.241 RSpredict(seed): 0.146 Positive Predictive Value RSpredict(20): 0.590 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs RSpredict(seed) Matthews Correlation Coefficient RNAshapes: 0.367 RSpredict(seed): 0.295 Sensitivity RNAshapes: 0.285 RSpredict(seed): 0.146 Positive Predictive Value RNAshapes: 0.474 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs RSpredict(seed) Matthews Correlation Coefficient RNASLOpt: 0.364 RSpredict(seed): 0.295 Sensitivity RNASLOpt: 0.261 RSpredict(seed): 0.146 Positive Predictive Value RNASLOpt: 0.510 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs RSpredict(seed) Matthews Correlation Coefficient Multilign(20): 0.350 RSpredict(seed): 0.295 Sensitivity Multilign(20): 0.161 RSpredict(seed): 0.146 Positive Predictive Value Multilign(20): 0.762 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs RSpredict(seed) Matthews Correlation Coefficient Murlet(20): 0.321 RSpredict(seed): 0.295 Sensitivity Murlet(20): 0.131 RSpredict(seed): 0.146 Positive Predictive Value Murlet(20): 0.787 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs RSpredict(seed) Matthews Correlation Coefficient RNAwolf: 0.310 RSpredict(seed): 0.295 Sensitivity RNAwolf: 0.261 RSpredict(seed): 0.146 Positive Predictive Value RNAwolf: 0.369 RSpredict(seed): 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ RSpredict(seed) vs CMfinder(20) Matthews Correlation Coefficient RSpredict(seed): 0.295 CMfinder(20): 0.292 Sensitivity RSpredict(seed): 0.146 CMfinder(20): 0.107 Positive Predictive Value RSpredict(seed): 0.597 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 0.000108348164592	+ RSpredict(seed) vs Vsfold4 Matthews Correlation Coefficient RSpredict(seed): 0.295 Vsfold4: 0.270 Sensitivity RSpredict(seed): 0.146 Vsfold4: 0.198 Positive Predictive Value RSpredict(seed): 0.597 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs Vsfold5 Matthews Correlation Coefficient RSpredict(seed): 0.295 Vsfold5: 0.260 Sensitivity RSpredict(seed): 0.146 Vsfold5: 0.195 Positive Predictive Value RSpredict(seed): 0.597 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs RNASampler(20) Matthews Correlation Coefficient RSpredict(seed): 0.295 RNASampler(20): 0.246 Sensitivity RSpredict(seed): 0.146 RNASampler(20): 0.069 Positive Predictive Value RSpredict(seed): 0.597 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs HotKnots Matthews Correlation Coefficient RSpredict(seed): 0.295 HotKnots: 0.212 Sensitivity RSpredict(seed): 0.146 HotKnots: 0.069 Positive Predictive Value RSpredict(seed): 0.597 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs Mastr(20) Matthews Correlation Coefficient RSpredict(seed): 0.295 Mastr(20): 0.187 Sensitivity RSpredict(seed): 0.146 Mastr(20): 0.044 Positive Predictive Value RSpredict(seed): 0.597 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs Cylofold Matthews Correlation Coefficient RSpredict(seed): 0.295 Cylofold: 0.178 Sensitivity RSpredict(seed): 0.146 Cylofold: 0.053 Positive Predictive Value RSpredict(seed): 0.597 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs Pknots Matthews Correlation Coefficient RSpredict(seed): 0.295 Pknots: 0.165 Sensitivity RSpredict(seed): 0.146 Pknots: 0.041 Positive Predictive Value RSpredict(seed): 0.597 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs Alterna Matthews Correlation Coefficient RSpredict(seed): 0.295 Alterna: 0.145 Sensitivity RSpredict(seed): 0.146 Alterna: 0.036 Positive Predictive Value RSpredict(seed): 0.597 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs MCFold Matthews Correlation Coefficient RSpredict(seed): 0.295 MCFold: 0.138 Sensitivity RSpredict(seed): 0.146 MCFold: 0.044 Positive Predictive Value RSpredict(seed): 0.597 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs RDfolder Matthews Correlation Coefficient RSpredict(seed): 0.295 RDfolder: 0.138 Sensitivity RSpredict(seed): 0.146 RDfolder: 0.031 Positive Predictive Value RSpredict(seed): 0.597 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs Murlet(seed) Matthews Correlation Coefficient RSpredict(seed): 0.295 Murlet(seed): 0.110 Sensitivity RSpredict(seed): 0.146 Murlet(seed): 0.015 Positive Predictive Value RSpredict(seed): 0.597 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs CMfinder(seed) Matthews Correlation Coefficient RSpredict(seed): 0.295 CMfinder(seed): 0.111 Sensitivity RSpredict(seed): 0.146 CMfinder(seed): 0.016 Positive Predictive Value RSpredict(seed): 0.597 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs TurboFold(seed) Matthews Correlation Coefficient RSpredict(seed): 0.295 TurboFold(seed): 0.106 Sensitivity RSpredict(seed): 0.146 TurboFold(seed): 0.014 Positive Predictive Value RSpredict(seed): 0.597 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs PPfold(seed) Matthews Correlation Coefficient RSpredict(seed): 0.295 PPfold(seed): 0.097 Sensitivity RSpredict(seed): 0.146 PPfold(seed): 0.012 Positive Predictive Value RSpredict(seed): 0.597 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs Carnac(seed) Matthews Correlation Coefficient RSpredict(seed): 0.295 Carnac(seed): 0.093 Sensitivity RSpredict(seed): 0.146 Carnac(seed): 0.010 Positive Predictive Value RSpredict(seed): 0.597 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs RNASampler(seed) Matthews Correlation Coefficient RSpredict(seed): 0.295 RNASampler(seed): 0.088 Sensitivity RSpredict(seed): 0.146 RNASampler(seed): 0.009 Positive Predictive Value RSpredict(seed): 0.597 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs Mastr(seed) Matthews Correlation Coefficient RSpredict(seed): 0.295 Mastr(seed): 0.072 Sensitivity RSpredict(seed): 0.146 Mastr(seed): 0.006 Positive Predictive Value RSpredict(seed): 0.597 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs NanoFolder Matthews Correlation Coefficient RSpredict(seed): 0.295 NanoFolder: 0.068 Sensitivity RSpredict(seed): 0.146 NanoFolder: 0.027 Positive Predictive Value RSpredict(seed): 0.597 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RSpredict(seed) vs Multilign(seed) Matthews Correlation Coefficient RSpredict(seed): 0.295 Multilign(seed): 0.059 Sensitivity RSpredict(seed): 0.146 Multilign(seed): 0.005 Positive Predictive Value RSpredict(seed): 0.597 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
CMfinder(20)	1242 ContextFold vs CMfinder(20) Matthews Correlation Coefficient ContextFold: 0.754 CMfinder(20): 0.292 Sensitivity ContextFold: 0.717 CMfinder(20): 0.107 Positive Predictive Value ContextFold: 0.794 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs CMfinder(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 CMfinder(20): 0.292 Sensitivity PETfold_pre2.0(seed): 0.667 CMfinder(20): 0.107 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs CMfinder(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 CMfinder(20): 0.292 Sensitivity CentroidAlifold(seed): 0.414 CMfinder(20): 0.107 Positive Predictive Value CentroidAlifold(seed): 0.901 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs CMfinder(20) Matthews Correlation Coefficient IPknot: 0.607 CMfinder(20): 0.292 Sensitivity IPknot: 0.551 CMfinder(20): 0.107 Positive Predictive Value IPknot: 0.670 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs CMfinder(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 CMfinder(20): 0.292 Sensitivity PETfold_pre2.0(20): 0.410 CMfinder(20): 0.107 Positive Predictive Value PETfold_pre2.0(20): 0.807 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs CMfinder(20) Matthews Correlation Coefficient CentroidFold: 0.571 CMfinder(20): 0.292 Sensitivity CentroidFold: 0.515 CMfinder(20): 0.107 Positive Predictive Value CentroidFold: 0.633 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs CMfinder(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 CMfinder(20): 0.292 Sensitivity CentroidAlifold(20): 0.369 CMfinder(20): 0.107 Positive Predictive Value CentroidAlifold(20): 0.891 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs CMfinder(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 CMfinder(20): 0.292 Sensitivity CentroidHomfold‑LAST: 0.359 CMfinder(20): 0.107 Positive Predictive Value CentroidHomfold‑LAST: 0.874 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs CMfinder(20) Matthews Correlation Coefficient Contrafold: 0.556 CMfinder(20): 0.292 Sensitivity Contrafold: 0.542 CMfinder(20): 0.107 Positive Predictive Value Contrafold: 0.571 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs CMfinder(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 CMfinder(20): 0.292 Sensitivity MXScarna(seed): 0.382 CMfinder(20): 0.107 Positive Predictive Value MXScarna(seed): 0.753 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs CMfinder(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 CMfinder(20): 0.292 Sensitivity RNAalifold(20): 0.359 CMfinder(20): 0.107 Positive Predictive Value RNAalifold(20): 0.787 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs CMfinder(20) Matthews Correlation Coefficient Sfold: 0.527 CMfinder(20): 0.292 Sensitivity Sfold: 0.477 CMfinder(20): 0.107 Positive Predictive Value Sfold: 0.582 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs CMfinder(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 CMfinder(20): 0.292 Sensitivity RNAalifold(seed): 0.328 CMfinder(20): 0.107 Positive Predictive Value RNAalifold(seed): 0.835 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs CMfinder(20) Matthews Correlation Coefficient MaxExpect: 0.516 CMfinder(20): 0.292 Sensitivity MaxExpect: 0.505 CMfinder(20): 0.107 Positive Predictive Value MaxExpect: 0.528 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs CMfinder(20) Matthews Correlation Coefficient ProbKnot: 0.512 CMfinder(20): 0.292 Sensitivity ProbKnot: 0.508 CMfinder(20): 0.107 Positive Predictive Value ProbKnot: 0.517 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs CMfinder(20) Matthews Correlation Coefficient MXScarna(20): 0.500 CMfinder(20): 0.292 Sensitivity MXScarna(20): 0.353 CMfinder(20): 0.107 Positive Predictive Value MXScarna(20): 0.710 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs CMfinder(20) Matthews Correlation Coefficient UNAFold: 0.494 CMfinder(20): 0.292 Sensitivity UNAFold: 0.491 CMfinder(20): 0.107 Positive Predictive Value UNAFold: 0.498 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs CMfinder(20) Matthews Correlation Coefficient Fold: 0.493 CMfinder(20): 0.292 Sensitivity Fold: 0.496 CMfinder(20): 0.107 Positive Predictive Value Fold: 0.490 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs CMfinder(20) Matthews Correlation Coefficient RNAfold: 0.485 CMfinder(20): 0.292 Sensitivity RNAfold: 0.486 CMfinder(20): 0.107 Positive Predictive Value RNAfold: 0.485 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs CMfinder(20) Matthews Correlation Coefficient PknotsRG: 0.474 CMfinder(20): 0.292 Sensitivity PknotsRG: 0.440 CMfinder(20): 0.107 Positive Predictive Value PknotsRG: 0.510 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs CMfinder(20) Matthews Correlation Coefficient CRWrnafold: 0.430 CMfinder(20): 0.292 Sensitivity CRWrnafold: 0.379 CMfinder(20): 0.107 Positive Predictive Value CRWrnafold: 0.490 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs CMfinder(20) Matthews Correlation Coefficient RNAsubopt: 0.422 CMfinder(20): 0.292 Sensitivity RNAsubopt: 0.344 CMfinder(20): 0.107 Positive Predictive Value RNAsubopt: 0.519 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs CMfinder(20) Matthews Correlation Coefficient TurboFold(20): 0.419 CMfinder(20): 0.292 Sensitivity TurboFold(20): 0.210 CMfinder(20): 0.107 Positive Predictive Value TurboFold(20): 0.837 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs CMfinder(20) Matthews Correlation Coefficient PPfold(20): 0.416 CMfinder(20): 0.292 Sensitivity PPfold(20): 0.197 CMfinder(20): 0.107 Positive Predictive Value PPfold(20): 0.879 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs CMfinder(20) Matthews Correlation Coefficient Afold: 0.408 CMfinder(20): 0.292 Sensitivity Afold: 0.343 CMfinder(20): 0.107 Positive Predictive Value Afold: 0.487 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs CMfinder(20) Matthews Correlation Coefficient Carnac(20): 0.401 CMfinder(20): 0.292 Sensitivity Carnac(20): 0.180 CMfinder(20): 0.107 Positive Predictive Value Carnac(20): 0.892 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs CMfinder(20) Matthews Correlation Coefficient McQFold: 0.389 CMfinder(20): 0.292 Sensitivity McQFold: 0.308 CMfinder(20): 0.107 Positive Predictive Value McQFold: 0.492 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs CMfinder(20) Matthews Correlation Coefficient RSpredict(20): 0.377 CMfinder(20): 0.292 Sensitivity RSpredict(20): 0.241 CMfinder(20): 0.107 Positive Predictive Value RSpredict(20): 0.590 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs CMfinder(20) Matthews Correlation Coefficient RNAshapes: 0.367 CMfinder(20): 0.292 Sensitivity RNAshapes: 0.285 CMfinder(20): 0.107 Positive Predictive Value RNAshapes: 0.474 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs CMfinder(20) Matthews Correlation Coefficient RNASLOpt: 0.364 CMfinder(20): 0.292 Sensitivity RNASLOpt: 0.261 CMfinder(20): 0.107 Positive Predictive Value RNASLOpt: 0.510 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs CMfinder(20) Matthews Correlation Coefficient Multilign(20): 0.350 CMfinder(20): 0.292 Sensitivity Multilign(20): 0.161 CMfinder(20): 0.107 Positive Predictive Value Multilign(20): 0.762 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs CMfinder(20) Matthews Correlation Coefficient Murlet(20): 0.321 CMfinder(20): 0.292 Sensitivity Murlet(20): 0.131 CMfinder(20): 0.107 Positive Predictive Value Murlet(20): 0.787 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs CMfinder(20) Matthews Correlation Coefficient RNAwolf: 0.310 CMfinder(20): 0.292 Sensitivity RNAwolf: 0.261 CMfinder(20): 0.107 Positive Predictive Value RNAwolf: 0.369 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs CMfinder(20) Matthews Correlation Coefficient RSpredict(seed): 0.295 CMfinder(20): 0.292 Sensitivity RSpredict(seed): 0.146 CMfinder(20): 0.107 Positive Predictive Value RSpredict(seed): 0.597 CMfinder(20): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 0.000108348164592		+ CMfinder(20) vs Vsfold4 Matthews Correlation Coefficient CMfinder(20): 0.292 Vsfold4: 0.270 Sensitivity CMfinder(20): 0.107 Vsfold4: 0.198 Positive Predictive Value CMfinder(20): 0.794 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs Vsfold5 Matthews Correlation Coefficient CMfinder(20): 0.292 Vsfold5: 0.260 Sensitivity CMfinder(20): 0.107 Vsfold5: 0.195 Positive Predictive Value CMfinder(20): 0.794 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs RNASampler(20) Matthews Correlation Coefficient CMfinder(20): 0.292 RNASampler(20): 0.246 Sensitivity CMfinder(20): 0.107 RNASampler(20): 0.069 Positive Predictive Value CMfinder(20): 0.794 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs HotKnots Matthews Correlation Coefficient CMfinder(20): 0.292 HotKnots: 0.212 Sensitivity CMfinder(20): 0.107 HotKnots: 0.069 Positive Predictive Value CMfinder(20): 0.794 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs Mastr(20) Matthews Correlation Coefficient CMfinder(20): 0.292 Mastr(20): 0.187 Sensitivity CMfinder(20): 0.107 Mastr(20): 0.044 Positive Predictive Value CMfinder(20): 0.794 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs Cylofold Matthews Correlation Coefficient CMfinder(20): 0.292 Cylofold: 0.178 Sensitivity CMfinder(20): 0.107 Cylofold: 0.053 Positive Predictive Value CMfinder(20): 0.794 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs Pknots Matthews Correlation Coefficient CMfinder(20): 0.292 Pknots: 0.165 Sensitivity CMfinder(20): 0.107 Pknots: 0.041 Positive Predictive Value CMfinder(20): 0.794 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs Alterna Matthews Correlation Coefficient CMfinder(20): 0.292 Alterna: 0.145 Sensitivity CMfinder(20): 0.107 Alterna: 0.036 Positive Predictive Value CMfinder(20): 0.794 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs MCFold Matthews Correlation Coefficient CMfinder(20): 0.292 MCFold: 0.138 Sensitivity CMfinder(20): 0.107 MCFold: 0.044 Positive Predictive Value CMfinder(20): 0.794 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs RDfolder Matthews Correlation Coefficient CMfinder(20): 0.292 RDfolder: 0.138 Sensitivity CMfinder(20): 0.107 RDfolder: 0.031 Positive Predictive Value CMfinder(20): 0.794 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs Murlet(seed) Matthews Correlation Coefficient CMfinder(20): 0.292 Murlet(seed): 0.110 Sensitivity CMfinder(20): 0.107 Murlet(seed): 0.015 Positive Predictive Value CMfinder(20): 0.794 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs CMfinder(seed) Matthews Correlation Coefficient CMfinder(20): 0.292 CMfinder(seed): 0.111 Sensitivity CMfinder(20): 0.107 CMfinder(seed): 0.016 Positive Predictive Value CMfinder(20): 0.794 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs TurboFold(seed) Matthews Correlation Coefficient CMfinder(20): 0.292 TurboFold(seed): 0.106 Sensitivity CMfinder(20): 0.107 TurboFold(seed): 0.014 Positive Predictive Value CMfinder(20): 0.794 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs PPfold(seed) Matthews Correlation Coefficient CMfinder(20): 0.292 PPfold(seed): 0.097 Sensitivity CMfinder(20): 0.107 PPfold(seed): 0.012 Positive Predictive Value CMfinder(20): 0.794 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs Carnac(seed) Matthews Correlation Coefficient CMfinder(20): 0.292 Carnac(seed): 0.093 Sensitivity CMfinder(20): 0.107 Carnac(seed): 0.010 Positive Predictive Value CMfinder(20): 0.794 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs RNASampler(seed) Matthews Correlation Coefficient CMfinder(20): 0.292 RNASampler(seed): 0.088 Sensitivity CMfinder(20): 0.107 RNASampler(seed): 0.009 Positive Predictive Value CMfinder(20): 0.794 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs Mastr(seed) Matthews Correlation Coefficient CMfinder(20): 0.292 Mastr(seed): 0.072 Sensitivity CMfinder(20): 0.107 Mastr(seed): 0.006 Positive Predictive Value CMfinder(20): 0.794 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs NanoFolder Matthews Correlation Coefficient CMfinder(20): 0.292 NanoFolder: 0.068 Sensitivity CMfinder(20): 0.107 NanoFolder: 0.027 Positive Predictive Value CMfinder(20): 0.794 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(20) vs Multilign(seed) Matthews Correlation Coefficient CMfinder(20): 0.292 Multilign(seed): 0.059 Sensitivity CMfinder(20): 0.107 Multilign(seed): 0.005 Positive Predictive Value CMfinder(20): 0.794 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
Vsfold4	1242 ContextFold vs Vsfold4 Matthews Correlation Coefficient ContextFold: 0.754 Vsfold4: 0.270 Sensitivity ContextFold: 0.717 Vsfold4: 0.198 Positive Predictive Value ContextFold: 0.794 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs Vsfold4 Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Vsfold4: 0.270 Sensitivity PETfold_pre2.0(seed): 0.667 Vsfold4: 0.198 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs Vsfold4 Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Vsfold4: 0.270 Sensitivity CentroidAlifold(seed): 0.414 Vsfold4: 0.198 Positive Predictive Value CentroidAlifold(seed): 0.901 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs Vsfold4 Matthews Correlation Coefficient IPknot: 0.607 Vsfold4: 0.270 Sensitivity IPknot: 0.551 Vsfold4: 0.198 Positive Predictive Value IPknot: 0.670 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs Vsfold4 Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Vsfold4: 0.270 Sensitivity PETfold_pre2.0(20): 0.410 Vsfold4: 0.198 Positive Predictive Value PETfold_pre2.0(20): 0.807 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs Vsfold4 Matthews Correlation Coefficient CentroidFold: 0.571 Vsfold4: 0.270 Sensitivity CentroidFold: 0.515 Vsfold4: 0.198 Positive Predictive Value CentroidFold: 0.633 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs Vsfold4 Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Vsfold4: 0.270 Sensitivity CentroidAlifold(20): 0.369 Vsfold4: 0.198 Positive Predictive Value CentroidAlifold(20): 0.891 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs Vsfold4 Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Vsfold4: 0.270 Sensitivity CentroidHomfold‑LAST: 0.359 Vsfold4: 0.198 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs Vsfold4 Matthews Correlation Coefficient Contrafold: 0.556 Vsfold4: 0.270 Sensitivity Contrafold: 0.542 Vsfold4: 0.198 Positive Predictive Value Contrafold: 0.571 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs Vsfold4 Matthews Correlation Coefficient MXScarna(seed): 0.536 Vsfold4: 0.270 Sensitivity MXScarna(seed): 0.382 Vsfold4: 0.198 Positive Predictive Value MXScarna(seed): 0.753 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs Vsfold4 Matthews Correlation Coefficient RNAalifold(20): 0.532 Vsfold4: 0.270 Sensitivity RNAalifold(20): 0.359 Vsfold4: 0.198 Positive Predictive Value RNAalifold(20): 0.787 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs Vsfold4 Matthews Correlation Coefficient Sfold: 0.527 Vsfold4: 0.270 Sensitivity Sfold: 0.477 Vsfold4: 0.198 Positive Predictive Value Sfold: 0.582 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs Vsfold4 Matthews Correlation Coefficient RNAalifold(seed): 0.523 Vsfold4: 0.270 Sensitivity RNAalifold(seed): 0.328 Vsfold4: 0.198 Positive Predictive Value RNAalifold(seed): 0.835 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs Vsfold4 Matthews Correlation Coefficient MaxExpect: 0.516 Vsfold4: 0.270 Sensitivity MaxExpect: 0.505 Vsfold4: 0.198 Positive Predictive Value MaxExpect: 0.528 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs Vsfold4 Matthews Correlation Coefficient ProbKnot: 0.512 Vsfold4: 0.270 Sensitivity ProbKnot: 0.508 Vsfold4: 0.198 Positive Predictive Value ProbKnot: 0.517 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs Vsfold4 Matthews Correlation Coefficient MXScarna(20): 0.500 Vsfold4: 0.270 Sensitivity MXScarna(20): 0.353 Vsfold4: 0.198 Positive Predictive Value MXScarna(20): 0.710 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs Vsfold4 Matthews Correlation Coefficient UNAFold: 0.494 Vsfold4: 0.270 Sensitivity UNAFold: 0.491 Vsfold4: 0.198 Positive Predictive Value UNAFold: 0.498 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs Vsfold4 Matthews Correlation Coefficient Fold: 0.493 Vsfold4: 0.270 Sensitivity Fold: 0.496 Vsfold4: 0.198 Positive Predictive Value Fold: 0.490 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs Vsfold4 Matthews Correlation Coefficient RNAfold: 0.485 Vsfold4: 0.270 Sensitivity RNAfold: 0.486 Vsfold4: 0.198 Positive Predictive Value RNAfold: 0.485 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs Vsfold4 Matthews Correlation Coefficient PknotsRG: 0.474 Vsfold4: 0.270 Sensitivity PknotsRG: 0.440 Vsfold4: 0.198 Positive Predictive Value PknotsRG: 0.510 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs Vsfold4 Matthews Correlation Coefficient CRWrnafold: 0.430 Vsfold4: 0.270 Sensitivity CRWrnafold: 0.379 Vsfold4: 0.198 Positive Predictive Value CRWrnafold: 0.490 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs Vsfold4 Matthews Correlation Coefficient RNAsubopt: 0.422 Vsfold4: 0.270 Sensitivity RNAsubopt: 0.344 Vsfold4: 0.198 Positive Predictive Value RNAsubopt: 0.519 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs Vsfold4 Matthews Correlation Coefficient TurboFold(20): 0.419 Vsfold4: 0.270 Sensitivity TurboFold(20): 0.210 Vsfold4: 0.198 Positive Predictive Value TurboFold(20): 0.837 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs Vsfold4 Matthews Correlation Coefficient PPfold(20): 0.416 Vsfold4: 0.270 Sensitivity PPfold(20): 0.197 Vsfold4: 0.198 Positive Predictive Value PPfold(20): 0.879 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs Vsfold4 Matthews Correlation Coefficient Afold: 0.408 Vsfold4: 0.270 Sensitivity Afold: 0.343 Vsfold4: 0.198 Positive Predictive Value Afold: 0.487 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs Vsfold4 Matthews Correlation Coefficient Carnac(20): 0.401 Vsfold4: 0.270 Sensitivity Carnac(20): 0.180 Vsfold4: 0.198 Positive Predictive Value Carnac(20): 0.892 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs Vsfold4 Matthews Correlation Coefficient McQFold: 0.389 Vsfold4: 0.270 Sensitivity McQFold: 0.308 Vsfold4: 0.198 Positive Predictive Value McQFold: 0.492 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs Vsfold4 Matthews Correlation Coefficient RSpredict(20): 0.377 Vsfold4: 0.270 Sensitivity RSpredict(20): 0.241 Vsfold4: 0.198 Positive Predictive Value RSpredict(20): 0.590 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs Vsfold4 Matthews Correlation Coefficient RNAshapes: 0.367 Vsfold4: 0.270 Sensitivity RNAshapes: 0.285 Vsfold4: 0.198 Positive Predictive Value RNAshapes: 0.474 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs Vsfold4 Matthews Correlation Coefficient RNASLOpt: 0.364 Vsfold4: 0.270 Sensitivity RNASLOpt: 0.261 Vsfold4: 0.198 Positive Predictive Value RNASLOpt: 0.510 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs Vsfold4 Matthews Correlation Coefficient Multilign(20): 0.350 Vsfold4: 0.270 Sensitivity Multilign(20): 0.161 Vsfold4: 0.198 Positive Predictive Value Multilign(20): 0.762 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs Vsfold4 Matthews Correlation Coefficient Murlet(20): 0.321 Vsfold4: 0.270 Sensitivity Murlet(20): 0.131 Vsfold4: 0.198 Positive Predictive Value Murlet(20): 0.787 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs Vsfold4 Matthews Correlation Coefficient RNAwolf: 0.310 Vsfold4: 0.270 Sensitivity RNAwolf: 0.261 Vsfold4: 0.198 Positive Predictive Value RNAwolf: 0.369 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs Vsfold4 Matthews Correlation Coefficient RSpredict(seed): 0.295 Vsfold4: 0.270 Sensitivity RSpredict(seed): 0.146 Vsfold4: 0.198 Positive Predictive Value RSpredict(seed): 0.597 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs Vsfold4 Matthews Correlation Coefficient CMfinder(20): 0.292 Vsfold4: 0.270 Sensitivity CMfinder(20): 0.107 Vsfold4: 0.198 Positive Predictive Value CMfinder(20): 0.794 Vsfold4: 0.371 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ Vsfold4 vs Vsfold5 Matthews Correlation Coefficient Vsfold4: 0.270 Vsfold5: 0.260 Sensitivity Vsfold4: 0.198 Vsfold5: 0.195 Positive Predictive Value Vsfold4: 0.371 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs RNASampler(20) Matthews Correlation Coefficient Vsfold4: 0.270 RNASampler(20): 0.246 Sensitivity Vsfold4: 0.198 RNASampler(20): 0.069 Positive Predictive Value Vsfold4: 0.371 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs HotKnots Matthews Correlation Coefficient Vsfold4: 0.270 HotKnots: 0.212 Sensitivity Vsfold4: 0.198 HotKnots: 0.069 Positive Predictive Value Vsfold4: 0.371 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs Mastr(20) Matthews Correlation Coefficient Vsfold4: 0.270 Mastr(20): 0.187 Sensitivity Vsfold4: 0.198 Mastr(20): 0.044 Positive Predictive Value Vsfold4: 0.371 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs Cylofold Matthews Correlation Coefficient Vsfold4: 0.270 Cylofold: 0.178 Sensitivity Vsfold4: 0.198 Cylofold: 0.053 Positive Predictive Value Vsfold4: 0.371 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs Pknots Matthews Correlation Coefficient Vsfold4: 0.270 Pknots: 0.165 Sensitivity Vsfold4: 0.198 Pknots: 0.041 Positive Predictive Value Vsfold4: 0.371 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs Alterna Matthews Correlation Coefficient Vsfold4: 0.270 Alterna: 0.145 Sensitivity Vsfold4: 0.198 Alterna: 0.036 Positive Predictive Value Vsfold4: 0.371 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs MCFold Matthews Correlation Coefficient Vsfold4: 0.270 MCFold: 0.138 Sensitivity Vsfold4: 0.198 MCFold: 0.044 Positive Predictive Value Vsfold4: 0.371 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs RDfolder Matthews Correlation Coefficient Vsfold4: 0.270 RDfolder: 0.138 Sensitivity Vsfold4: 0.198 RDfolder: 0.031 Positive Predictive Value Vsfold4: 0.371 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs Murlet(seed) Matthews Correlation Coefficient Vsfold4: 0.270 Murlet(seed): 0.110 Sensitivity Vsfold4: 0.198 Murlet(seed): 0.015 Positive Predictive Value Vsfold4: 0.371 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs CMfinder(seed) Matthews Correlation Coefficient Vsfold4: 0.270 CMfinder(seed): 0.111 Sensitivity Vsfold4: 0.198 CMfinder(seed): 0.016 Positive Predictive Value Vsfold4: 0.371 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs TurboFold(seed) Matthews Correlation Coefficient Vsfold4: 0.270 TurboFold(seed): 0.106 Sensitivity Vsfold4: 0.198 TurboFold(seed): 0.014 Positive Predictive Value Vsfold4: 0.371 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs PPfold(seed) Matthews Correlation Coefficient Vsfold4: 0.270 PPfold(seed): 0.097 Sensitivity Vsfold4: 0.198 PPfold(seed): 0.012 Positive Predictive Value Vsfold4: 0.371 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs Carnac(seed) Matthews Correlation Coefficient Vsfold4: 0.270 Carnac(seed): 0.093 Sensitivity Vsfold4: 0.198 Carnac(seed): 0.010 Positive Predictive Value Vsfold4: 0.371 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs RNASampler(seed) Matthews Correlation Coefficient Vsfold4: 0.270 RNASampler(seed): 0.088 Sensitivity Vsfold4: 0.198 RNASampler(seed): 0.009 Positive Predictive Value Vsfold4: 0.371 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs Mastr(seed) Matthews Correlation Coefficient Vsfold4: 0.270 Mastr(seed): 0.072 Sensitivity Vsfold4: 0.198 Mastr(seed): 0.006 Positive Predictive Value Vsfold4: 0.371 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs NanoFolder Matthews Correlation Coefficient Vsfold4: 0.270 NanoFolder: 0.068 Sensitivity Vsfold4: 0.198 NanoFolder: 0.027 Positive Predictive Value Vsfold4: 0.371 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold4 vs Multilign(seed) Matthews Correlation Coefficient Vsfold4: 0.270 Multilign(seed): 0.059 Sensitivity Vsfold4: 0.198 Multilign(seed): 0.005 Positive Predictive Value Vsfold4: 0.371 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
Vsfold5	1242 ContextFold vs Vsfold5 Matthews Correlation Coefficient ContextFold: 0.754 Vsfold5: 0.260 Sensitivity ContextFold: 0.717 Vsfold5: 0.195 Positive Predictive Value ContextFold: 0.794 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs Vsfold5 Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Vsfold5: 0.260 Sensitivity PETfold_pre2.0(seed): 0.667 Vsfold5: 0.195 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs Vsfold5 Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Vsfold5: 0.260 Sensitivity CentroidAlifold(seed): 0.414 Vsfold5: 0.195 Positive Predictive Value CentroidAlifold(seed): 0.901 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs Vsfold5 Matthews Correlation Coefficient IPknot: 0.607 Vsfold5: 0.260 Sensitivity IPknot: 0.551 Vsfold5: 0.195 Positive Predictive Value IPknot: 0.670 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs Vsfold5 Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Vsfold5: 0.260 Sensitivity PETfold_pre2.0(20): 0.410 Vsfold5: 0.195 Positive Predictive Value PETfold_pre2.0(20): 0.807 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs Vsfold5 Matthews Correlation Coefficient CentroidFold: 0.571 Vsfold5: 0.260 Sensitivity CentroidFold: 0.515 Vsfold5: 0.195 Positive Predictive Value CentroidFold: 0.633 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs Vsfold5 Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Vsfold5: 0.260 Sensitivity CentroidAlifold(20): 0.369 Vsfold5: 0.195 Positive Predictive Value CentroidAlifold(20): 0.891 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs Vsfold5 Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Vsfold5: 0.260 Sensitivity CentroidHomfold‑LAST: 0.359 Vsfold5: 0.195 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs Vsfold5 Matthews Correlation Coefficient Contrafold: 0.556 Vsfold5: 0.260 Sensitivity Contrafold: 0.542 Vsfold5: 0.195 Positive Predictive Value Contrafold: 0.571 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs Vsfold5 Matthews Correlation Coefficient MXScarna(seed): 0.536 Vsfold5: 0.260 Sensitivity MXScarna(seed): 0.382 Vsfold5: 0.195 Positive Predictive Value MXScarna(seed): 0.753 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs Vsfold5 Matthews Correlation Coefficient RNAalifold(20): 0.532 Vsfold5: 0.260 Sensitivity RNAalifold(20): 0.359 Vsfold5: 0.195 Positive Predictive Value RNAalifold(20): 0.787 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs Vsfold5 Matthews Correlation Coefficient Sfold: 0.527 Vsfold5: 0.260 Sensitivity Sfold: 0.477 Vsfold5: 0.195 Positive Predictive Value Sfold: 0.582 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs Vsfold5 Matthews Correlation Coefficient RNAalifold(seed): 0.523 Vsfold5: 0.260 Sensitivity RNAalifold(seed): 0.328 Vsfold5: 0.195 Positive Predictive Value RNAalifold(seed): 0.835 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs Vsfold5 Matthews Correlation Coefficient MaxExpect: 0.516 Vsfold5: 0.260 Sensitivity MaxExpect: 0.505 Vsfold5: 0.195 Positive Predictive Value MaxExpect: 0.528 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs Vsfold5 Matthews Correlation Coefficient ProbKnot: 0.512 Vsfold5: 0.260 Sensitivity ProbKnot: 0.508 Vsfold5: 0.195 Positive Predictive Value ProbKnot: 0.517 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs Vsfold5 Matthews Correlation Coefficient MXScarna(20): 0.500 Vsfold5: 0.260 Sensitivity MXScarna(20): 0.353 Vsfold5: 0.195 Positive Predictive Value MXScarna(20): 0.710 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs Vsfold5 Matthews Correlation Coefficient UNAFold: 0.494 Vsfold5: 0.260 Sensitivity UNAFold: 0.491 Vsfold5: 0.195 Positive Predictive Value UNAFold: 0.498 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs Vsfold5 Matthews Correlation Coefficient Fold: 0.493 Vsfold5: 0.260 Sensitivity Fold: 0.496 Vsfold5: 0.195 Positive Predictive Value Fold: 0.490 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs Vsfold5 Matthews Correlation Coefficient RNAfold: 0.485 Vsfold5: 0.260 Sensitivity RNAfold: 0.486 Vsfold5: 0.195 Positive Predictive Value RNAfold: 0.485 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs Vsfold5 Matthews Correlation Coefficient PknotsRG: 0.474 Vsfold5: 0.260 Sensitivity PknotsRG: 0.440 Vsfold5: 0.195 Positive Predictive Value PknotsRG: 0.510 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs Vsfold5 Matthews Correlation Coefficient CRWrnafold: 0.430 Vsfold5: 0.260 Sensitivity CRWrnafold: 0.379 Vsfold5: 0.195 Positive Predictive Value CRWrnafold: 0.490 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs Vsfold5 Matthews Correlation Coefficient RNAsubopt: 0.422 Vsfold5: 0.260 Sensitivity RNAsubopt: 0.344 Vsfold5: 0.195 Positive Predictive Value RNAsubopt: 0.519 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs Vsfold5 Matthews Correlation Coefficient TurboFold(20): 0.419 Vsfold5: 0.260 Sensitivity TurboFold(20): 0.210 Vsfold5: 0.195 Positive Predictive Value TurboFold(20): 0.837 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs Vsfold5 Matthews Correlation Coefficient PPfold(20): 0.416 Vsfold5: 0.260 Sensitivity PPfold(20): 0.197 Vsfold5: 0.195 Positive Predictive Value PPfold(20): 0.879 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs Vsfold5 Matthews Correlation Coefficient Afold: 0.408 Vsfold5: 0.260 Sensitivity Afold: 0.343 Vsfold5: 0.195 Positive Predictive Value Afold: 0.487 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs Vsfold5 Matthews Correlation Coefficient Carnac(20): 0.401 Vsfold5: 0.260 Sensitivity Carnac(20): 0.180 Vsfold5: 0.195 Positive Predictive Value Carnac(20): 0.892 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs Vsfold5 Matthews Correlation Coefficient McQFold: 0.389 Vsfold5: 0.260 Sensitivity McQFold: 0.308 Vsfold5: 0.195 Positive Predictive Value McQFold: 0.492 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs Vsfold5 Matthews Correlation Coefficient RSpredict(20): 0.377 Vsfold5: 0.260 Sensitivity RSpredict(20): 0.241 Vsfold5: 0.195 Positive Predictive Value RSpredict(20): 0.590 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs Vsfold5 Matthews Correlation Coefficient RNAshapes: 0.367 Vsfold5: 0.260 Sensitivity RNAshapes: 0.285 Vsfold5: 0.195 Positive Predictive Value RNAshapes: 0.474 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs Vsfold5 Matthews Correlation Coefficient RNASLOpt: 0.364 Vsfold5: 0.260 Sensitivity RNASLOpt: 0.261 Vsfold5: 0.195 Positive Predictive Value RNASLOpt: 0.510 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs Vsfold5 Matthews Correlation Coefficient Multilign(20): 0.350 Vsfold5: 0.260 Sensitivity Multilign(20): 0.161 Vsfold5: 0.195 Positive Predictive Value Multilign(20): 0.762 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs Vsfold5 Matthews Correlation Coefficient Murlet(20): 0.321 Vsfold5: 0.260 Sensitivity Murlet(20): 0.131 Vsfold5: 0.195 Positive Predictive Value Murlet(20): 0.787 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs Vsfold5 Matthews Correlation Coefficient RNAwolf: 0.310 Vsfold5: 0.260 Sensitivity RNAwolf: 0.261 Vsfold5: 0.195 Positive Predictive Value RNAwolf: 0.369 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs Vsfold5 Matthews Correlation Coefficient RSpredict(seed): 0.295 Vsfold5: 0.260 Sensitivity RSpredict(seed): 0.146 Vsfold5: 0.195 Positive Predictive Value RSpredict(seed): 0.597 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs Vsfold5 Matthews Correlation Coefficient CMfinder(20): 0.292 Vsfold5: 0.260 Sensitivity CMfinder(20): 0.107 Vsfold5: 0.195 Positive Predictive Value CMfinder(20): 0.794 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold4 vs Vsfold5 Matthews Correlation Coefficient Vsfold4: 0.270 Vsfold5: 0.260 Sensitivity Vsfold4: 0.198 Vsfold5: 0.195 Positive Predictive Value Vsfold4: 0.371 Vsfold5: 0.347 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ Vsfold5 vs RNASampler(20) Matthews Correlation Coefficient Vsfold5: 0.260 RNASampler(20): 0.246 Sensitivity Vsfold5: 0.195 RNASampler(20): 0.069 Positive Predictive Value Vsfold5: 0.347 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs HotKnots Matthews Correlation Coefficient Vsfold5: 0.260 HotKnots: 0.212 Sensitivity Vsfold5: 0.195 HotKnots: 0.069 Positive Predictive Value Vsfold5: 0.347 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs Mastr(20) Matthews Correlation Coefficient Vsfold5: 0.260 Mastr(20): 0.187 Sensitivity Vsfold5: 0.195 Mastr(20): 0.044 Positive Predictive Value Vsfold5: 0.347 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs Cylofold Matthews Correlation Coefficient Vsfold5: 0.260 Cylofold: 0.178 Sensitivity Vsfold5: 0.195 Cylofold: 0.053 Positive Predictive Value Vsfold5: 0.347 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs Pknots Matthews Correlation Coefficient Vsfold5: 0.260 Pknots: 0.165 Sensitivity Vsfold5: 0.195 Pknots: 0.041 Positive Predictive Value Vsfold5: 0.347 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs Alterna Matthews Correlation Coefficient Vsfold5: 0.260 Alterna: 0.145 Sensitivity Vsfold5: 0.195 Alterna: 0.036 Positive Predictive Value Vsfold5: 0.347 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs MCFold Matthews Correlation Coefficient Vsfold5: 0.260 MCFold: 0.138 Sensitivity Vsfold5: 0.195 MCFold: 0.044 Positive Predictive Value Vsfold5: 0.347 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs RDfolder Matthews Correlation Coefficient Vsfold5: 0.260 RDfolder: 0.138 Sensitivity Vsfold5: 0.195 RDfolder: 0.031 Positive Predictive Value Vsfold5: 0.347 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs Murlet(seed) Matthews Correlation Coefficient Vsfold5: 0.260 Murlet(seed): 0.110 Sensitivity Vsfold5: 0.195 Murlet(seed): 0.015 Positive Predictive Value Vsfold5: 0.347 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs CMfinder(seed) Matthews Correlation Coefficient Vsfold5: 0.260 CMfinder(seed): 0.111 Sensitivity Vsfold5: 0.195 CMfinder(seed): 0.016 Positive Predictive Value Vsfold5: 0.347 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs TurboFold(seed) Matthews Correlation Coefficient Vsfold5: 0.260 TurboFold(seed): 0.106 Sensitivity Vsfold5: 0.195 TurboFold(seed): 0.014 Positive Predictive Value Vsfold5: 0.347 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs PPfold(seed) Matthews Correlation Coefficient Vsfold5: 0.260 PPfold(seed): 0.097 Sensitivity Vsfold5: 0.195 PPfold(seed): 0.012 Positive Predictive Value Vsfold5: 0.347 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs Carnac(seed) Matthews Correlation Coefficient Vsfold5: 0.260 Carnac(seed): 0.093 Sensitivity Vsfold5: 0.195 Carnac(seed): 0.010 Positive Predictive Value Vsfold5: 0.347 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs RNASampler(seed) Matthews Correlation Coefficient Vsfold5: 0.260 RNASampler(seed): 0.088 Sensitivity Vsfold5: 0.195 RNASampler(seed): 0.009 Positive Predictive Value Vsfold5: 0.347 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs Mastr(seed) Matthews Correlation Coefficient Vsfold5: 0.260 Mastr(seed): 0.072 Sensitivity Vsfold5: 0.195 Mastr(seed): 0.006 Positive Predictive Value Vsfold5: 0.347 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs NanoFolder Matthews Correlation Coefficient Vsfold5: 0.260 NanoFolder: 0.068 Sensitivity Vsfold5: 0.195 NanoFolder: 0.027 Positive Predictive Value Vsfold5: 0.347 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Vsfold5 vs Multilign(seed) Matthews Correlation Coefficient Vsfold5: 0.260 Multilign(seed): 0.059 Sensitivity Vsfold5: 0.195 Multilign(seed): 0.005 Positive Predictive Value Vsfold5: 0.347 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
RNASampler(20)	1242 ContextFold vs RNASampler(20) Matthews Correlation Coefficient ContextFold: 0.754 RNASampler(20): 0.246 Sensitivity ContextFold: 0.717 RNASampler(20): 0.069 Positive Predictive Value ContextFold: 0.794 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs RNASampler(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RNASampler(20): 0.246 Sensitivity PETfold_pre2.0(seed): 0.667 RNASampler(20): 0.069 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs RNASampler(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RNASampler(20): 0.246 Sensitivity CentroidAlifold(seed): 0.414 RNASampler(20): 0.069 Positive Predictive Value CentroidAlifold(seed): 0.901 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs RNASampler(20) Matthews Correlation Coefficient IPknot: 0.607 RNASampler(20): 0.246 Sensitivity IPknot: 0.551 RNASampler(20): 0.069 Positive Predictive Value IPknot: 0.670 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs RNASampler(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RNASampler(20): 0.246 Sensitivity PETfold_pre2.0(20): 0.410 RNASampler(20): 0.069 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs RNASampler(20) Matthews Correlation Coefficient CentroidFold: 0.571 RNASampler(20): 0.246 Sensitivity CentroidFold: 0.515 RNASampler(20): 0.069 Positive Predictive Value CentroidFold: 0.633 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs RNASampler(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RNASampler(20): 0.246 Sensitivity CentroidAlifold(20): 0.369 RNASampler(20): 0.069 Positive Predictive Value CentroidAlifold(20): 0.891 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs RNASampler(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RNASampler(20): 0.246 Sensitivity CentroidHomfold‑LAST: 0.359 RNASampler(20): 0.069 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs RNASampler(20) Matthews Correlation Coefficient Contrafold: 0.556 RNASampler(20): 0.246 Sensitivity Contrafold: 0.542 RNASampler(20): 0.069 Positive Predictive Value Contrafold: 0.571 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs RNASampler(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 RNASampler(20): 0.246 Sensitivity MXScarna(seed): 0.382 RNASampler(20): 0.069 Positive Predictive Value MXScarna(seed): 0.753 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs RNASampler(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 RNASampler(20): 0.246 Sensitivity RNAalifold(20): 0.359 RNASampler(20): 0.069 Positive Predictive Value RNAalifold(20): 0.787 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs RNASampler(20) Matthews Correlation Coefficient Sfold: 0.527 RNASampler(20): 0.246 Sensitivity Sfold: 0.477 RNASampler(20): 0.069 Positive Predictive Value Sfold: 0.582 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs RNASampler(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 RNASampler(20): 0.246 Sensitivity RNAalifold(seed): 0.328 RNASampler(20): 0.069 Positive Predictive Value RNAalifold(seed): 0.835 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs RNASampler(20) Matthews Correlation Coefficient MaxExpect: 0.516 RNASampler(20): 0.246 Sensitivity MaxExpect: 0.505 RNASampler(20): 0.069 Positive Predictive Value MaxExpect: 0.528 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs RNASampler(20) Matthews Correlation Coefficient ProbKnot: 0.512 RNASampler(20): 0.246 Sensitivity ProbKnot: 0.508 RNASampler(20): 0.069 Positive Predictive Value ProbKnot: 0.517 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs RNASampler(20) Matthews Correlation Coefficient MXScarna(20): 0.500 RNASampler(20): 0.246 Sensitivity MXScarna(20): 0.353 RNASampler(20): 0.069 Positive Predictive Value MXScarna(20): 0.710 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs RNASampler(20) Matthews Correlation Coefficient UNAFold: 0.494 RNASampler(20): 0.246 Sensitivity UNAFold: 0.491 RNASampler(20): 0.069 Positive Predictive Value UNAFold: 0.498 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs RNASampler(20) Matthews Correlation Coefficient Fold: 0.493 RNASampler(20): 0.246 Sensitivity Fold: 0.496 RNASampler(20): 0.069 Positive Predictive Value Fold: 0.490 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs RNASampler(20) Matthews Correlation Coefficient RNAfold: 0.485 RNASampler(20): 0.246 Sensitivity RNAfold: 0.486 RNASampler(20): 0.069 Positive Predictive Value RNAfold: 0.485 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs RNASampler(20) Matthews Correlation Coefficient PknotsRG: 0.474 RNASampler(20): 0.246 Sensitivity PknotsRG: 0.440 RNASampler(20): 0.069 Positive Predictive Value PknotsRG: 0.510 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs RNASampler(20) Matthews Correlation Coefficient CRWrnafold: 0.430 RNASampler(20): 0.246 Sensitivity CRWrnafold: 0.379 RNASampler(20): 0.069 Positive Predictive Value CRWrnafold: 0.490 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs RNASampler(20) Matthews Correlation Coefficient RNAsubopt: 0.422 RNASampler(20): 0.246 Sensitivity RNAsubopt: 0.344 RNASampler(20): 0.069 Positive Predictive Value RNAsubopt: 0.519 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs RNASampler(20) Matthews Correlation Coefficient TurboFold(20): 0.419 RNASampler(20): 0.246 Sensitivity TurboFold(20): 0.210 RNASampler(20): 0.069 Positive Predictive Value TurboFold(20): 0.837 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs RNASampler(20) Matthews Correlation Coefficient PPfold(20): 0.416 RNASampler(20): 0.246 Sensitivity PPfold(20): 0.197 RNASampler(20): 0.069 Positive Predictive Value PPfold(20): 0.879 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs RNASampler(20) Matthews Correlation Coefficient Afold: 0.408 RNASampler(20): 0.246 Sensitivity Afold: 0.343 RNASampler(20): 0.069 Positive Predictive Value Afold: 0.487 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs RNASampler(20) Matthews Correlation Coefficient Carnac(20): 0.401 RNASampler(20): 0.246 Sensitivity Carnac(20): 0.180 RNASampler(20): 0.069 Positive Predictive Value Carnac(20): 0.892 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs RNASampler(20) Matthews Correlation Coefficient McQFold: 0.389 RNASampler(20): 0.246 Sensitivity McQFold: 0.308 RNASampler(20): 0.069 Positive Predictive Value McQFold: 0.492 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs RNASampler(20) Matthews Correlation Coefficient RSpredict(20): 0.377 RNASampler(20): 0.246 Sensitivity RSpredict(20): 0.241 RNASampler(20): 0.069 Positive Predictive Value RSpredict(20): 0.590 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs RNASampler(20) Matthews Correlation Coefficient RNAshapes: 0.367 RNASampler(20): 0.246 Sensitivity RNAshapes: 0.285 RNASampler(20): 0.069 Positive Predictive Value RNAshapes: 0.474 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs RNASampler(20) Matthews Correlation Coefficient RNASLOpt: 0.364 RNASampler(20): 0.246 Sensitivity RNASLOpt: 0.261 RNASampler(20): 0.069 Positive Predictive Value RNASLOpt: 0.510 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs RNASampler(20) Matthews Correlation Coefficient Multilign(20): 0.350 RNASampler(20): 0.246 Sensitivity Multilign(20): 0.161 RNASampler(20): 0.069 Positive Predictive Value Multilign(20): 0.762 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs RNASampler(20) Matthews Correlation Coefficient Murlet(20): 0.321 RNASampler(20): 0.246 Sensitivity Murlet(20): 0.131 RNASampler(20): 0.069 Positive Predictive Value Murlet(20): 0.787 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs RNASampler(20) Matthews Correlation Coefficient RNAwolf: 0.310 RNASampler(20): 0.246 Sensitivity RNAwolf: 0.261 RNASampler(20): 0.069 Positive Predictive Value RNAwolf: 0.369 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs RNASampler(20) Matthews Correlation Coefficient RSpredict(seed): 0.295 RNASampler(20): 0.246 Sensitivity RSpredict(seed): 0.146 RNASampler(20): 0.069 Positive Predictive Value RSpredict(seed): 0.597 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs RNASampler(20) Matthews Correlation Coefficient CMfinder(20): 0.292 RNASampler(20): 0.246 Sensitivity CMfinder(20): 0.107 RNASampler(20): 0.069 Positive Predictive Value CMfinder(20): 0.794 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold4 vs RNASampler(20) Matthews Correlation Coefficient Vsfold4: 0.270 RNASampler(20): 0.246 Sensitivity Vsfold4: 0.198 RNASampler(20): 0.069 Positive Predictive Value Vsfold4: 0.371 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold5 vs RNASampler(20) Matthews Correlation Coefficient Vsfold5: 0.260 RNASampler(20): 0.246 Sensitivity Vsfold5: 0.195 RNASampler(20): 0.069 Positive Predictive Value Vsfold5: 0.347 RNASampler(20): 0.877 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ RNASampler(20) vs HotKnots Matthews Correlation Coefficient RNASampler(20): 0.246 HotKnots: 0.212 Sensitivity RNASampler(20): 0.069 HotKnots: 0.069 Positive Predictive Value RNASampler(20): 0.877 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs Mastr(20) Matthews Correlation Coefficient RNASampler(20): 0.246 Mastr(20): 0.187 Sensitivity RNASampler(20): 0.069 Mastr(20): 0.044 Positive Predictive Value RNASampler(20): 0.877 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs Cylofold Matthews Correlation Coefficient RNASampler(20): 0.246 Cylofold: 0.178 Sensitivity RNASampler(20): 0.069 Cylofold: 0.053 Positive Predictive Value RNASampler(20): 0.877 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs Pknots Matthews Correlation Coefficient RNASampler(20): 0.246 Pknots: 0.165 Sensitivity RNASampler(20): 0.069 Pknots: 0.041 Positive Predictive Value RNASampler(20): 0.877 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs Alterna Matthews Correlation Coefficient RNASampler(20): 0.246 Alterna: 0.145 Sensitivity RNASampler(20): 0.069 Alterna: 0.036 Positive Predictive Value RNASampler(20): 0.877 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs MCFold Matthews Correlation Coefficient RNASampler(20): 0.246 MCFold: 0.138 Sensitivity RNASampler(20): 0.069 MCFold: 0.044 Positive Predictive Value RNASampler(20): 0.877 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs RDfolder Matthews Correlation Coefficient RNASampler(20): 0.246 RDfolder: 0.138 Sensitivity RNASampler(20): 0.069 RDfolder: 0.031 Positive Predictive Value RNASampler(20): 0.877 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs Murlet(seed) Matthews Correlation Coefficient RNASampler(20): 0.246 Murlet(seed): 0.110 Sensitivity RNASampler(20): 0.069 Murlet(seed): 0.015 Positive Predictive Value RNASampler(20): 0.877 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs CMfinder(seed) Matthews Correlation Coefficient RNASampler(20): 0.246 CMfinder(seed): 0.111 Sensitivity RNASampler(20): 0.069 CMfinder(seed): 0.016 Positive Predictive Value RNASampler(20): 0.877 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs TurboFold(seed) Matthews Correlation Coefficient RNASampler(20): 0.246 TurboFold(seed): 0.106 Sensitivity RNASampler(20): 0.069 TurboFold(seed): 0.014 Positive Predictive Value RNASampler(20): 0.877 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs PPfold(seed) Matthews Correlation Coefficient RNASampler(20): 0.246 PPfold(seed): 0.097 Sensitivity RNASampler(20): 0.069 PPfold(seed): 0.012 Positive Predictive Value RNASampler(20): 0.877 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs Carnac(seed) Matthews Correlation Coefficient RNASampler(20): 0.246 Carnac(seed): 0.093 Sensitivity RNASampler(20): 0.069 Carnac(seed): 0.010 Positive Predictive Value RNASampler(20): 0.877 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs RNASampler(seed) Matthews Correlation Coefficient RNASampler(20): 0.246 RNASampler(seed): 0.088 Sensitivity RNASampler(20): 0.069 RNASampler(seed): 0.009 Positive Predictive Value RNASampler(20): 0.877 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs Mastr(seed) Matthews Correlation Coefficient RNASampler(20): 0.246 Mastr(seed): 0.072 Sensitivity RNASampler(20): 0.069 Mastr(seed): 0.006 Positive Predictive Value RNASampler(20): 0.877 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs NanoFolder Matthews Correlation Coefficient RNASampler(20): 0.246 NanoFolder: 0.068 Sensitivity RNASampler(20): 0.069 NanoFolder: 0.027 Positive Predictive Value RNASampler(20): 0.877 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(20) vs Multilign(seed) Matthews Correlation Coefficient RNASampler(20): 0.246 Multilign(seed): 0.059 Sensitivity RNASampler(20): 0.069 Multilign(seed): 0.005 Positive Predictive Value RNASampler(20): 0.877 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
HotKnots	1242 ContextFold vs HotKnots Matthews Correlation Coefficient ContextFold: 0.754 HotKnots: 0.212 Sensitivity ContextFold: 0.717 HotKnots: 0.069 Positive Predictive Value ContextFold: 0.794 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs HotKnots Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 HotKnots: 0.212 Sensitivity PETfold_pre2.0(seed): 0.667 HotKnots: 0.069 Positive Predictive Value PETfold_pre2.0(seed): 0.814 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs HotKnots Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 HotKnots: 0.212 Sensitivity CentroidAlifold(seed): 0.414 HotKnots: 0.069 Positive Predictive Value CentroidAlifold(seed): 0.901 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs HotKnots Matthews Correlation Coefficient IPknot: 0.607 HotKnots: 0.212 Sensitivity IPknot: 0.551 HotKnots: 0.069 Positive Predictive Value IPknot: 0.670 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs HotKnots Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 HotKnots: 0.212 Sensitivity PETfold_pre2.0(20): 0.410 HotKnots: 0.069 Positive Predictive Value PETfold_pre2.0(20): 0.807 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs HotKnots Matthews Correlation Coefficient CentroidFold: 0.571 HotKnots: 0.212 Sensitivity CentroidFold: 0.515 HotKnots: 0.069 Positive Predictive Value CentroidFold: 0.633 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs HotKnots Matthews Correlation Coefficient CentroidAlifold(20): 0.573 HotKnots: 0.212 Sensitivity CentroidAlifold(20): 0.369 HotKnots: 0.069 Positive Predictive Value CentroidAlifold(20): 0.891 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs HotKnots Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 HotKnots: 0.212 Sensitivity CentroidHomfold‑LAST: 0.359 HotKnots: 0.069 Positive Predictive Value CentroidHomfold‑LAST: 0.874 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs HotKnots Matthews Correlation Coefficient Contrafold: 0.556 HotKnots: 0.212 Sensitivity Contrafold: 0.542 HotKnots: 0.069 Positive Predictive Value Contrafold: 0.571 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs HotKnots Matthews Correlation Coefficient MXScarna(seed): 0.536 HotKnots: 0.212 Sensitivity MXScarna(seed): 0.382 HotKnots: 0.069 Positive Predictive Value MXScarna(seed): 0.753 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs HotKnots Matthews Correlation Coefficient RNAalifold(20): 0.532 HotKnots: 0.212 Sensitivity RNAalifold(20): 0.359 HotKnots: 0.069 Positive Predictive Value RNAalifold(20): 0.787 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs HotKnots Matthews Correlation Coefficient Sfold: 0.527 HotKnots: 0.212 Sensitivity Sfold: 0.477 HotKnots: 0.069 Positive Predictive Value Sfold: 0.582 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs HotKnots Matthews Correlation Coefficient RNAalifold(seed): 0.523 HotKnots: 0.212 Sensitivity RNAalifold(seed): 0.328 HotKnots: 0.069 Positive Predictive Value RNAalifold(seed): 0.835 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs HotKnots Matthews Correlation Coefficient MaxExpect: 0.516 HotKnots: 0.212 Sensitivity MaxExpect: 0.505 HotKnots: 0.069 Positive Predictive Value MaxExpect: 0.528 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs HotKnots Matthews Correlation Coefficient ProbKnot: 0.512 HotKnots: 0.212 Sensitivity ProbKnot: 0.508 HotKnots: 0.069 Positive Predictive Value ProbKnot: 0.517 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs HotKnots Matthews Correlation Coefficient MXScarna(20): 0.500 HotKnots: 0.212 Sensitivity MXScarna(20): 0.353 HotKnots: 0.069 Positive Predictive Value MXScarna(20): 0.710 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs HotKnots Matthews Correlation Coefficient UNAFold: 0.494 HotKnots: 0.212 Sensitivity UNAFold: 0.491 HotKnots: 0.069 Positive Predictive Value UNAFold: 0.498 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs HotKnots Matthews Correlation Coefficient Fold: 0.493 HotKnots: 0.212 Sensitivity Fold: 0.496 HotKnots: 0.069 Positive Predictive Value Fold: 0.490 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs HotKnots Matthews Correlation Coefficient RNAfold: 0.485 HotKnots: 0.212 Sensitivity RNAfold: 0.486 HotKnots: 0.069 Positive Predictive Value RNAfold: 0.485 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs HotKnots Matthews Correlation Coefficient PknotsRG: 0.474 HotKnots: 0.212 Sensitivity PknotsRG: 0.440 HotKnots: 0.069 Positive Predictive Value PknotsRG: 0.510 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs HotKnots Matthews Correlation Coefficient CRWrnafold: 0.430 HotKnots: 0.212 Sensitivity CRWrnafold: 0.379 HotKnots: 0.069 Positive Predictive Value CRWrnafold: 0.490 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs HotKnots Matthews Correlation Coefficient RNAsubopt: 0.422 HotKnots: 0.212 Sensitivity RNAsubopt: 0.344 HotKnots: 0.069 Positive Predictive Value RNAsubopt: 0.519 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs HotKnots Matthews Correlation Coefficient TurboFold(20): 0.419 HotKnots: 0.212 Sensitivity TurboFold(20): 0.210 HotKnots: 0.069 Positive Predictive Value TurboFold(20): 0.837 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs HotKnots Matthews Correlation Coefficient PPfold(20): 0.416 HotKnots: 0.212 Sensitivity PPfold(20): 0.197 HotKnots: 0.069 Positive Predictive Value PPfold(20): 0.879 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs HotKnots Matthews Correlation Coefficient Afold: 0.408 HotKnots: 0.212 Sensitivity Afold: 0.343 HotKnots: 0.069 Positive Predictive Value Afold: 0.487 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs HotKnots Matthews Correlation Coefficient Carnac(20): 0.401 HotKnots: 0.212 Sensitivity Carnac(20): 0.180 HotKnots: 0.069 Positive Predictive Value Carnac(20): 0.892 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs HotKnots Matthews Correlation Coefficient McQFold: 0.389 HotKnots: 0.212 Sensitivity McQFold: 0.308 HotKnots: 0.069 Positive Predictive Value McQFold: 0.492 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs HotKnots Matthews Correlation Coefficient RSpredict(20): 0.377 HotKnots: 0.212 Sensitivity RSpredict(20): 0.241 HotKnots: 0.069 Positive Predictive Value RSpredict(20): 0.590 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs HotKnots Matthews Correlation Coefficient RNAshapes: 0.367 HotKnots: 0.212 Sensitivity RNAshapes: 0.285 HotKnots: 0.069 Positive Predictive Value RNAshapes: 0.474 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs HotKnots Matthews Correlation Coefficient RNASLOpt: 0.364 HotKnots: 0.212 Sensitivity RNASLOpt: 0.261 HotKnots: 0.069 Positive Predictive Value RNASLOpt: 0.510 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs HotKnots Matthews Correlation Coefficient Multilign(20): 0.350 HotKnots: 0.212 Sensitivity Multilign(20): 0.161 HotKnots: 0.069 Positive Predictive Value Multilign(20): 0.762 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs HotKnots Matthews Correlation Coefficient Murlet(20): 0.321 HotKnots: 0.212 Sensitivity Murlet(20): 0.131 HotKnots: 0.069 Positive Predictive Value Murlet(20): 0.787 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs HotKnots Matthews Correlation Coefficient RNAwolf: 0.310 HotKnots: 0.212 Sensitivity RNAwolf: 0.261 HotKnots: 0.069 Positive Predictive Value RNAwolf: 0.369 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs HotKnots Matthews Correlation Coefficient RSpredict(seed): 0.295 HotKnots: 0.212 Sensitivity RSpredict(seed): 0.146 HotKnots: 0.069 Positive Predictive Value RSpredict(seed): 0.597 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs HotKnots Matthews Correlation Coefficient CMfinder(20): 0.292 HotKnots: 0.212 Sensitivity CMfinder(20): 0.107 HotKnots: 0.069 Positive Predictive Value CMfinder(20): 0.794 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold4 vs HotKnots Matthews Correlation Coefficient Vsfold4: 0.270 HotKnots: 0.212 Sensitivity Vsfold4: 0.198 HotKnots: 0.069 Positive Predictive Value Vsfold4: 0.371 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold5 vs HotKnots Matthews Correlation Coefficient Vsfold5: 0.260 HotKnots: 0.212 Sensitivity Vsfold5: 0.195 HotKnots: 0.069 Positive Predictive Value Vsfold5: 0.347 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(20) vs HotKnots Matthews Correlation Coefficient RNASampler(20): 0.246 HotKnots: 0.212 Sensitivity RNASampler(20): 0.069 HotKnots: 0.069 Positive Predictive Value RNASampler(20): 0.877 HotKnots: 0.659 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ HotKnots vs Mastr(20) Matthews Correlation Coefficient HotKnots: 0.212 Mastr(20): 0.187 Sensitivity HotKnots: 0.069 Mastr(20): 0.044 Positive Predictive Value HotKnots: 0.659 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs Cylofold Matthews Correlation Coefficient HotKnots: 0.212 Cylofold: 0.178 Sensitivity HotKnots: 0.069 Cylofold: 0.053 Positive Predictive Value HotKnots: 0.659 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs Pknots Matthews Correlation Coefficient HotKnots: 0.212 Pknots: 0.165 Sensitivity HotKnots: 0.069 Pknots: 0.041 Positive Predictive Value HotKnots: 0.659 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs Alterna Matthews Correlation Coefficient HotKnots: 0.212 Alterna: 0.145 Sensitivity HotKnots: 0.069 Alterna: 0.036 Positive Predictive Value HotKnots: 0.659 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs MCFold Matthews Correlation Coefficient HotKnots: 0.212 MCFold: 0.138 Sensitivity HotKnots: 0.069 MCFold: 0.044 Positive Predictive Value HotKnots: 0.659 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs RDfolder Matthews Correlation Coefficient HotKnots: 0.212 RDfolder: 0.138 Sensitivity HotKnots: 0.069 RDfolder: 0.031 Positive Predictive Value HotKnots: 0.659 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs Murlet(seed) Matthews Correlation Coefficient HotKnots: 0.212 Murlet(seed): 0.110 Sensitivity HotKnots: 0.069 Murlet(seed): 0.015 Positive Predictive Value HotKnots: 0.659 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs CMfinder(seed) Matthews Correlation Coefficient HotKnots: 0.212 CMfinder(seed): 0.111 Sensitivity HotKnots: 0.069 CMfinder(seed): 0.016 Positive Predictive Value HotKnots: 0.659 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs TurboFold(seed) Matthews Correlation Coefficient HotKnots: 0.212 TurboFold(seed): 0.106 Sensitivity HotKnots: 0.069 TurboFold(seed): 0.014 Positive Predictive Value HotKnots: 0.659 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs PPfold(seed) Matthews Correlation Coefficient HotKnots: 0.212 PPfold(seed): 0.097 Sensitivity HotKnots: 0.069 PPfold(seed): 0.012 Positive Predictive Value HotKnots: 0.659 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs Carnac(seed) Matthews Correlation Coefficient HotKnots: 0.212 Carnac(seed): 0.093 Sensitivity HotKnots: 0.069 Carnac(seed): 0.010 Positive Predictive Value HotKnots: 0.659 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs RNASampler(seed) Matthews Correlation Coefficient HotKnots: 0.212 RNASampler(seed): 0.088 Sensitivity HotKnots: 0.069 RNASampler(seed): 0.009 Positive Predictive Value HotKnots: 0.659 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs Mastr(seed) Matthews Correlation Coefficient HotKnots: 0.212 Mastr(seed): 0.072 Sensitivity HotKnots: 0.069 Mastr(seed): 0.006 Positive Predictive Value HotKnots: 0.659 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs NanoFolder Matthews Correlation Coefficient HotKnots: 0.212 NanoFolder: 0.068 Sensitivity HotKnots: 0.069 NanoFolder: 0.027 Positive Predictive Value HotKnots: 0.659 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ HotKnots vs Multilign(seed) Matthews Correlation Coefficient HotKnots: 0.212 Multilign(seed): 0.059 Sensitivity HotKnots: 0.069 Multilign(seed): 0.005 Positive Predictive Value HotKnots: 0.659 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
Mastr(20)	1242 ContextFold vs Mastr(20) Matthews Correlation Coefficient ContextFold: 0.754 Mastr(20): 0.187 Sensitivity ContextFold: 0.717 Mastr(20): 0.044 Positive Predictive Value ContextFold: 0.794 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs Mastr(20) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Mastr(20): 0.187 Sensitivity PETfold_pre2.0(seed): 0.667 Mastr(20): 0.044 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs Mastr(20) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Mastr(20): 0.187 Sensitivity CentroidAlifold(seed): 0.414 Mastr(20): 0.044 Positive Predictive Value CentroidAlifold(seed): 0.901 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs Mastr(20) Matthews Correlation Coefficient IPknot: 0.607 Mastr(20): 0.187 Sensitivity IPknot: 0.551 Mastr(20): 0.044 Positive Predictive Value IPknot: 0.670 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs Mastr(20) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Mastr(20): 0.187 Sensitivity PETfold_pre2.0(20): 0.410 Mastr(20): 0.044 Positive Predictive Value PETfold_pre2.0(20): 0.807 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs Mastr(20) Matthews Correlation Coefficient CentroidFold: 0.571 Mastr(20): 0.187 Sensitivity CentroidFold: 0.515 Mastr(20): 0.044 Positive Predictive Value CentroidFold: 0.633 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs Mastr(20) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Mastr(20): 0.187 Sensitivity CentroidAlifold(20): 0.369 Mastr(20): 0.044 Positive Predictive Value CentroidAlifold(20): 0.891 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs Mastr(20) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Mastr(20): 0.187 Sensitivity CentroidHomfold‑LAST: 0.359 Mastr(20): 0.044 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs Mastr(20) Matthews Correlation Coefficient Contrafold: 0.556 Mastr(20): 0.187 Sensitivity Contrafold: 0.542 Mastr(20): 0.044 Positive Predictive Value Contrafold: 0.571 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs Mastr(20) Matthews Correlation Coefficient MXScarna(seed): 0.536 Mastr(20): 0.187 Sensitivity MXScarna(seed): 0.382 Mastr(20): 0.044 Positive Predictive Value MXScarna(seed): 0.753 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs Mastr(20) Matthews Correlation Coefficient RNAalifold(20): 0.532 Mastr(20): 0.187 Sensitivity RNAalifold(20): 0.359 Mastr(20): 0.044 Positive Predictive Value RNAalifold(20): 0.787 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs Mastr(20) Matthews Correlation Coefficient Sfold: 0.527 Mastr(20): 0.187 Sensitivity Sfold: 0.477 Mastr(20): 0.044 Positive Predictive Value Sfold: 0.582 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs Mastr(20) Matthews Correlation Coefficient RNAalifold(seed): 0.523 Mastr(20): 0.187 Sensitivity RNAalifold(seed): 0.328 Mastr(20): 0.044 Positive Predictive Value RNAalifold(seed): 0.835 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs Mastr(20) Matthews Correlation Coefficient MaxExpect: 0.516 Mastr(20): 0.187 Sensitivity MaxExpect: 0.505 Mastr(20): 0.044 Positive Predictive Value MaxExpect: 0.528 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs Mastr(20) Matthews Correlation Coefficient ProbKnot: 0.512 Mastr(20): 0.187 Sensitivity ProbKnot: 0.508 Mastr(20): 0.044 Positive Predictive Value ProbKnot: 0.517 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs Mastr(20) Matthews Correlation Coefficient MXScarna(20): 0.500 Mastr(20): 0.187 Sensitivity MXScarna(20): 0.353 Mastr(20): 0.044 Positive Predictive Value MXScarna(20): 0.710 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs Mastr(20) Matthews Correlation Coefficient UNAFold: 0.494 Mastr(20): 0.187 Sensitivity UNAFold: 0.491 Mastr(20): 0.044 Positive Predictive Value UNAFold: 0.498 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs Mastr(20) Matthews Correlation Coefficient Fold: 0.493 Mastr(20): 0.187 Sensitivity Fold: 0.496 Mastr(20): 0.044 Positive Predictive Value Fold: 0.490 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs Mastr(20) Matthews Correlation Coefficient RNAfold: 0.485 Mastr(20): 0.187 Sensitivity RNAfold: 0.486 Mastr(20): 0.044 Positive Predictive Value RNAfold: 0.485 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs Mastr(20) Matthews Correlation Coefficient PknotsRG: 0.474 Mastr(20): 0.187 Sensitivity PknotsRG: 0.440 Mastr(20): 0.044 Positive Predictive Value PknotsRG: 0.510 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs Mastr(20) Matthews Correlation Coefficient CRWrnafold: 0.430 Mastr(20): 0.187 Sensitivity CRWrnafold: 0.379 Mastr(20): 0.044 Positive Predictive Value CRWrnafold: 0.490 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs Mastr(20) Matthews Correlation Coefficient RNAsubopt: 0.422 Mastr(20): 0.187 Sensitivity RNAsubopt: 0.344 Mastr(20): 0.044 Positive Predictive Value RNAsubopt: 0.519 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs Mastr(20) Matthews Correlation Coefficient TurboFold(20): 0.419 Mastr(20): 0.187 Sensitivity TurboFold(20): 0.210 Mastr(20): 0.044 Positive Predictive Value TurboFold(20): 0.837 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs Mastr(20) Matthews Correlation Coefficient PPfold(20): 0.416 Mastr(20): 0.187 Sensitivity PPfold(20): 0.197 Mastr(20): 0.044 Positive Predictive Value PPfold(20): 0.879 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs Mastr(20) Matthews Correlation Coefficient Afold: 0.408 Mastr(20): 0.187 Sensitivity Afold: 0.343 Mastr(20): 0.044 Positive Predictive Value Afold: 0.487 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs Mastr(20) Matthews Correlation Coefficient Carnac(20): 0.401 Mastr(20): 0.187 Sensitivity Carnac(20): 0.180 Mastr(20): 0.044 Positive Predictive Value Carnac(20): 0.892 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs Mastr(20) Matthews Correlation Coefficient McQFold: 0.389 Mastr(20): 0.187 Sensitivity McQFold: 0.308 Mastr(20): 0.044 Positive Predictive Value McQFold: 0.492 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs Mastr(20) Matthews Correlation Coefficient RSpredict(20): 0.377 Mastr(20): 0.187 Sensitivity RSpredict(20): 0.241 Mastr(20): 0.044 Positive Predictive Value RSpredict(20): 0.590 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs Mastr(20) Matthews Correlation Coefficient RNAshapes: 0.367 Mastr(20): 0.187 Sensitivity RNAshapes: 0.285 Mastr(20): 0.044 Positive Predictive Value RNAshapes: 0.474 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs Mastr(20) Matthews Correlation Coefficient RNASLOpt: 0.364 Mastr(20): 0.187 Sensitivity RNASLOpt: 0.261 Mastr(20): 0.044 Positive Predictive Value RNASLOpt: 0.510 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs Mastr(20) Matthews Correlation Coefficient Multilign(20): 0.350 Mastr(20): 0.187 Sensitivity Multilign(20): 0.161 Mastr(20): 0.044 Positive Predictive Value Multilign(20): 0.762 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs Mastr(20) Matthews Correlation Coefficient Murlet(20): 0.321 Mastr(20): 0.187 Sensitivity Murlet(20): 0.131 Mastr(20): 0.044 Positive Predictive Value Murlet(20): 0.787 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs Mastr(20) Matthews Correlation Coefficient RNAwolf: 0.310 Mastr(20): 0.187 Sensitivity RNAwolf: 0.261 Mastr(20): 0.044 Positive Predictive Value RNAwolf: 0.369 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs Mastr(20) Matthews Correlation Coefficient RSpredict(seed): 0.295 Mastr(20): 0.187 Sensitivity RSpredict(seed): 0.146 Mastr(20): 0.044 Positive Predictive Value RSpredict(seed): 0.597 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs Mastr(20) Matthews Correlation Coefficient CMfinder(20): 0.292 Mastr(20): 0.187 Sensitivity CMfinder(20): 0.107 Mastr(20): 0.044 Positive Predictive Value CMfinder(20): 0.794 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold4 vs Mastr(20) Matthews Correlation Coefficient Vsfold4: 0.270 Mastr(20): 0.187 Sensitivity Vsfold4: 0.198 Mastr(20): 0.044 Positive Predictive Value Vsfold4: 0.371 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold5 vs Mastr(20) Matthews Correlation Coefficient Vsfold5: 0.260 Mastr(20): 0.187 Sensitivity Vsfold5: 0.195 Mastr(20): 0.044 Positive Predictive Value Vsfold5: 0.347 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(20) vs Mastr(20) Matthews Correlation Coefficient RNASampler(20): 0.246 Mastr(20): 0.187 Sensitivity RNASampler(20): 0.069 Mastr(20): 0.044 Positive Predictive Value RNASampler(20): 0.877 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 HotKnots vs Mastr(20) Matthews Correlation Coefficient HotKnots: 0.212 Mastr(20): 0.187 Sensitivity HotKnots: 0.069 Mastr(20): 0.044 Positive Predictive Value HotKnots: 0.659 Mastr(20): 0.790 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ Mastr(20) vs Cylofold Matthews Correlation Coefficient Mastr(20): 0.187 Cylofold: 0.178 Sensitivity Mastr(20): 0.044 Cylofold: 0.053 Positive Predictive Value Mastr(20): 0.790 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs Pknots Matthews Correlation Coefficient Mastr(20): 0.187 Pknots: 0.165 Sensitivity Mastr(20): 0.044 Pknots: 0.041 Positive Predictive Value Mastr(20): 0.790 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs Alterna Matthews Correlation Coefficient Mastr(20): 0.187 Alterna: 0.145 Sensitivity Mastr(20): 0.044 Alterna: 0.036 Positive Predictive Value Mastr(20): 0.790 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs MCFold Matthews Correlation Coefficient Mastr(20): 0.187 MCFold: 0.138 Sensitivity Mastr(20): 0.044 MCFold: 0.044 Positive Predictive Value Mastr(20): 0.790 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs RDfolder Matthews Correlation Coefficient Mastr(20): 0.187 RDfolder: 0.138 Sensitivity Mastr(20): 0.044 RDfolder: 0.031 Positive Predictive Value Mastr(20): 0.790 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs Murlet(seed) Matthews Correlation Coefficient Mastr(20): 0.187 Murlet(seed): 0.110 Sensitivity Mastr(20): 0.044 Murlet(seed): 0.015 Positive Predictive Value Mastr(20): 0.790 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs CMfinder(seed) Matthews Correlation Coefficient Mastr(20): 0.187 CMfinder(seed): 0.111 Sensitivity Mastr(20): 0.044 CMfinder(seed): 0.016 Positive Predictive Value Mastr(20): 0.790 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs TurboFold(seed) Matthews Correlation Coefficient Mastr(20): 0.187 TurboFold(seed): 0.106 Sensitivity Mastr(20): 0.044 TurboFold(seed): 0.014 Positive Predictive Value Mastr(20): 0.790 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs PPfold(seed) Matthews Correlation Coefficient Mastr(20): 0.187 PPfold(seed): 0.097 Sensitivity Mastr(20): 0.044 PPfold(seed): 0.012 Positive Predictive Value Mastr(20): 0.790 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs Carnac(seed) Matthews Correlation Coefficient Mastr(20): 0.187 Carnac(seed): 0.093 Sensitivity Mastr(20): 0.044 Carnac(seed): 0.010 Positive Predictive Value Mastr(20): 0.790 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs RNASampler(seed) Matthews Correlation Coefficient Mastr(20): 0.187 RNASampler(seed): 0.088 Sensitivity Mastr(20): 0.044 RNASampler(seed): 0.009 Positive Predictive Value Mastr(20): 0.790 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs Mastr(seed) Matthews Correlation Coefficient Mastr(20): 0.187 Mastr(seed): 0.072 Sensitivity Mastr(20): 0.044 Mastr(seed): 0.006 Positive Predictive Value Mastr(20): 0.790 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs NanoFolder Matthews Correlation Coefficient Mastr(20): 0.187 NanoFolder: 0.068 Sensitivity Mastr(20): 0.044 NanoFolder: 0.027 Positive Predictive Value Mastr(20): 0.790 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Mastr(20) vs Multilign(seed) Matthews Correlation Coefficient Mastr(20): 0.187 Multilign(seed): 0.059 Sensitivity Mastr(20): 0.044 Multilign(seed): 0.005 Positive Predictive Value Mastr(20): 0.790 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
Cylofold	1242 ContextFold vs Cylofold Matthews Correlation Coefficient ContextFold: 0.754 Cylofold: 0.178 Sensitivity ContextFold: 0.717 Cylofold: 0.053 Positive Predictive Value ContextFold: 0.794 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs Cylofold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Cylofold: 0.178 Sensitivity PETfold_pre2.0(seed): 0.667 Cylofold: 0.053 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs Cylofold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Cylofold: 0.178 Sensitivity CentroidAlifold(seed): 0.414 Cylofold: 0.053 Positive Predictive Value CentroidAlifold(seed): 0.901 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs Cylofold Matthews Correlation Coefficient IPknot: 0.607 Cylofold: 0.178 Sensitivity IPknot: 0.551 Cylofold: 0.053 Positive Predictive Value IPknot: 0.670 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs Cylofold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Cylofold: 0.178 Sensitivity PETfold_pre2.0(20): 0.410 Cylofold: 0.053 Positive Predictive Value PETfold_pre2.0(20): 0.807 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs Cylofold Matthews Correlation Coefficient CentroidFold: 0.571 Cylofold: 0.178 Sensitivity CentroidFold: 0.515 Cylofold: 0.053 Positive Predictive Value CentroidFold: 0.633 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs Cylofold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Cylofold: 0.178 Sensitivity CentroidAlifold(20): 0.369 Cylofold: 0.053 Positive Predictive Value CentroidAlifold(20): 0.891 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs Cylofold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Cylofold: 0.178 Sensitivity CentroidHomfold‑LAST: 0.359 Cylofold: 0.053 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs Cylofold Matthews Correlation Coefficient Contrafold: 0.556 Cylofold: 0.178 Sensitivity Contrafold: 0.542 Cylofold: 0.053 Positive Predictive Value Contrafold: 0.571 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs Cylofold Matthews Correlation Coefficient MXScarna(seed): 0.536 Cylofold: 0.178 Sensitivity MXScarna(seed): 0.382 Cylofold: 0.053 Positive Predictive Value MXScarna(seed): 0.753 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs Cylofold Matthews Correlation Coefficient RNAalifold(20): 0.532 Cylofold: 0.178 Sensitivity RNAalifold(20): 0.359 Cylofold: 0.053 Positive Predictive Value RNAalifold(20): 0.787 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs Cylofold Matthews Correlation Coefficient Sfold: 0.527 Cylofold: 0.178 Sensitivity Sfold: 0.477 Cylofold: 0.053 Positive Predictive Value Sfold: 0.582 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs Cylofold Matthews Correlation Coefficient RNAalifold(seed): 0.523 Cylofold: 0.178 Sensitivity RNAalifold(seed): 0.328 Cylofold: 0.053 Positive Predictive Value RNAalifold(seed): 0.835 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs Cylofold Matthews Correlation Coefficient MaxExpect: 0.516 Cylofold: 0.178 Sensitivity MaxExpect: 0.505 Cylofold: 0.053 Positive Predictive Value MaxExpect: 0.528 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs Cylofold Matthews Correlation Coefficient ProbKnot: 0.512 Cylofold: 0.178 Sensitivity ProbKnot: 0.508 Cylofold: 0.053 Positive Predictive Value ProbKnot: 0.517 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs Cylofold Matthews Correlation Coefficient MXScarna(20): 0.500 Cylofold: 0.178 Sensitivity MXScarna(20): 0.353 Cylofold: 0.053 Positive Predictive Value MXScarna(20): 0.710 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs Cylofold Matthews Correlation Coefficient UNAFold: 0.494 Cylofold: 0.178 Sensitivity UNAFold: 0.491 Cylofold: 0.053 Positive Predictive Value UNAFold: 0.498 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs Cylofold Matthews Correlation Coefficient Fold: 0.493 Cylofold: 0.178 Sensitivity Fold: 0.496 Cylofold: 0.053 Positive Predictive Value Fold: 0.490 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs Cylofold Matthews Correlation Coefficient RNAfold: 0.485 Cylofold: 0.178 Sensitivity RNAfold: 0.486 Cylofold: 0.053 Positive Predictive Value RNAfold: 0.485 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs Cylofold Matthews Correlation Coefficient PknotsRG: 0.474 Cylofold: 0.178 Sensitivity PknotsRG: 0.440 Cylofold: 0.053 Positive Predictive Value PknotsRG: 0.510 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs Cylofold Matthews Correlation Coefficient CRWrnafold: 0.430 Cylofold: 0.178 Sensitivity CRWrnafold: 0.379 Cylofold: 0.053 Positive Predictive Value CRWrnafold: 0.490 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs Cylofold Matthews Correlation Coefficient RNAsubopt: 0.422 Cylofold: 0.178 Sensitivity RNAsubopt: 0.344 Cylofold: 0.053 Positive Predictive Value RNAsubopt: 0.519 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs Cylofold Matthews Correlation Coefficient TurboFold(20): 0.419 Cylofold: 0.178 Sensitivity TurboFold(20): 0.210 Cylofold: 0.053 Positive Predictive Value TurboFold(20): 0.837 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs Cylofold Matthews Correlation Coefficient PPfold(20): 0.416 Cylofold: 0.178 Sensitivity PPfold(20): 0.197 Cylofold: 0.053 Positive Predictive Value PPfold(20): 0.879 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs Cylofold Matthews Correlation Coefficient Afold: 0.408 Cylofold: 0.178 Sensitivity Afold: 0.343 Cylofold: 0.053 Positive Predictive Value Afold: 0.487 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs Cylofold Matthews Correlation Coefficient Carnac(20): 0.401 Cylofold: 0.178 Sensitivity Carnac(20): 0.180 Cylofold: 0.053 Positive Predictive Value Carnac(20): 0.892 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs Cylofold Matthews Correlation Coefficient McQFold: 0.389 Cylofold: 0.178 Sensitivity McQFold: 0.308 Cylofold: 0.053 Positive Predictive Value McQFold: 0.492 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs Cylofold Matthews Correlation Coefficient RSpredict(20): 0.377 Cylofold: 0.178 Sensitivity RSpredict(20): 0.241 Cylofold: 0.053 Positive Predictive Value RSpredict(20): 0.590 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs Cylofold Matthews Correlation Coefficient RNAshapes: 0.367 Cylofold: 0.178 Sensitivity RNAshapes: 0.285 Cylofold: 0.053 Positive Predictive Value RNAshapes: 0.474 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs Cylofold Matthews Correlation Coefficient RNASLOpt: 0.364 Cylofold: 0.178 Sensitivity RNASLOpt: 0.261 Cylofold: 0.053 Positive Predictive Value RNASLOpt: 0.510 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs Cylofold Matthews Correlation Coefficient Multilign(20): 0.350 Cylofold: 0.178 Sensitivity Multilign(20): 0.161 Cylofold: 0.053 Positive Predictive Value Multilign(20): 0.762 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs Cylofold Matthews Correlation Coefficient Murlet(20): 0.321 Cylofold: 0.178 Sensitivity Murlet(20): 0.131 Cylofold: 0.053 Positive Predictive Value Murlet(20): 0.787 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs Cylofold Matthews Correlation Coefficient RNAwolf: 0.310 Cylofold: 0.178 Sensitivity RNAwolf: 0.261 Cylofold: 0.053 Positive Predictive Value RNAwolf: 0.369 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs Cylofold Matthews Correlation Coefficient RSpredict(seed): 0.295 Cylofold: 0.178 Sensitivity RSpredict(seed): 0.146 Cylofold: 0.053 Positive Predictive Value RSpredict(seed): 0.597 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs Cylofold Matthews Correlation Coefficient CMfinder(20): 0.292 Cylofold: 0.178 Sensitivity CMfinder(20): 0.107 Cylofold: 0.053 Positive Predictive Value CMfinder(20): 0.794 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold4 vs Cylofold Matthews Correlation Coefficient Vsfold4: 0.270 Cylofold: 0.178 Sensitivity Vsfold4: 0.198 Cylofold: 0.053 Positive Predictive Value Vsfold4: 0.371 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold5 vs Cylofold Matthews Correlation Coefficient Vsfold5: 0.260 Cylofold: 0.178 Sensitivity Vsfold5: 0.195 Cylofold: 0.053 Positive Predictive Value Vsfold5: 0.347 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(20) vs Cylofold Matthews Correlation Coefficient RNASampler(20): 0.246 Cylofold: 0.178 Sensitivity RNASampler(20): 0.069 Cylofold: 0.053 Positive Predictive Value RNASampler(20): 0.877 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 HotKnots vs Cylofold Matthews Correlation Coefficient HotKnots: 0.212 Cylofold: 0.178 Sensitivity HotKnots: 0.069 Cylofold: 0.053 Positive Predictive Value HotKnots: 0.659 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Mastr(20) vs Cylofold Matthews Correlation Coefficient Mastr(20): 0.187 Cylofold: 0.178 Sensitivity Mastr(20): 0.044 Cylofold: 0.053 Positive Predictive Value Mastr(20): 0.790 Cylofold: 0.597 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ Cylofold vs Pknots Matthews Correlation Coefficient Cylofold: 0.178 Pknots: 0.165 Sensitivity Cylofold: 0.053 Pknots: 0.041 Positive Predictive Value Cylofold: 0.597 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs Alterna Matthews Correlation Coefficient Cylofold: 0.178 Alterna: 0.145 Sensitivity Cylofold: 0.053 Alterna: 0.036 Positive Predictive Value Cylofold: 0.597 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs MCFold Matthews Correlation Coefficient Cylofold: 0.178 MCFold: 0.138 Sensitivity Cylofold: 0.053 MCFold: 0.044 Positive Predictive Value Cylofold: 0.597 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs RDfolder Matthews Correlation Coefficient Cylofold: 0.178 RDfolder: 0.138 Sensitivity Cylofold: 0.053 RDfolder: 0.031 Positive Predictive Value Cylofold: 0.597 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs Murlet(seed) Matthews Correlation Coefficient Cylofold: 0.178 Murlet(seed): 0.110 Sensitivity Cylofold: 0.053 Murlet(seed): 0.015 Positive Predictive Value Cylofold: 0.597 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs CMfinder(seed) Matthews Correlation Coefficient Cylofold: 0.178 CMfinder(seed): 0.111 Sensitivity Cylofold: 0.053 CMfinder(seed): 0.016 Positive Predictive Value Cylofold: 0.597 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs TurboFold(seed) Matthews Correlation Coefficient Cylofold: 0.178 TurboFold(seed): 0.106 Sensitivity Cylofold: 0.053 TurboFold(seed): 0.014 Positive Predictive Value Cylofold: 0.597 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs PPfold(seed) Matthews Correlation Coefficient Cylofold: 0.178 PPfold(seed): 0.097 Sensitivity Cylofold: 0.053 PPfold(seed): 0.012 Positive Predictive Value Cylofold: 0.597 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs Carnac(seed) Matthews Correlation Coefficient Cylofold: 0.178 Carnac(seed): 0.093 Sensitivity Cylofold: 0.053 Carnac(seed): 0.010 Positive Predictive Value Cylofold: 0.597 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs RNASampler(seed) Matthews Correlation Coefficient Cylofold: 0.178 RNASampler(seed): 0.088 Sensitivity Cylofold: 0.053 RNASampler(seed): 0.009 Positive Predictive Value Cylofold: 0.597 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs Mastr(seed) Matthews Correlation Coefficient Cylofold: 0.178 Mastr(seed): 0.072 Sensitivity Cylofold: 0.053 Mastr(seed): 0.006 Positive Predictive Value Cylofold: 0.597 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs NanoFolder Matthews Correlation Coefficient Cylofold: 0.178 NanoFolder: 0.068 Sensitivity Cylofold: 0.053 NanoFolder: 0.027 Positive Predictive Value Cylofold: 0.597 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Cylofold vs Multilign(seed) Matthews Correlation Coefficient Cylofold: 0.178 Multilign(seed): 0.059 Sensitivity Cylofold: 0.053 Multilign(seed): 0.005 Positive Predictive Value Cylofold: 0.597 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
Pknots	1242 ContextFold vs Pknots Matthews Correlation Coefficient ContextFold: 0.754 Pknots: 0.165 Sensitivity ContextFold: 0.717 Pknots: 0.041 Positive Predictive Value ContextFold: 0.794 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs Pknots Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Pknots: 0.165 Sensitivity PETfold_pre2.0(seed): 0.667 Pknots: 0.041 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs Pknots Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Pknots: 0.165 Sensitivity CentroidAlifold(seed): 0.414 Pknots: 0.041 Positive Predictive Value CentroidAlifold(seed): 0.901 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs Pknots Matthews Correlation Coefficient IPknot: 0.607 Pknots: 0.165 Sensitivity IPknot: 0.551 Pknots: 0.041 Positive Predictive Value IPknot: 0.670 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs Pknots Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Pknots: 0.165 Sensitivity PETfold_pre2.0(20): 0.410 Pknots: 0.041 Positive Predictive Value PETfold_pre2.0(20): 0.807 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs Pknots Matthews Correlation Coefficient CentroidFold: 0.571 Pknots: 0.165 Sensitivity CentroidFold: 0.515 Pknots: 0.041 Positive Predictive Value CentroidFold: 0.633 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs Pknots Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Pknots: 0.165 Sensitivity CentroidAlifold(20): 0.369 Pknots: 0.041 Positive Predictive Value CentroidAlifold(20): 0.891 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs Pknots Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Pknots: 0.165 Sensitivity CentroidHomfold‑LAST: 0.359 Pknots: 0.041 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs Pknots Matthews Correlation Coefficient Contrafold: 0.556 Pknots: 0.165 Sensitivity Contrafold: 0.542 Pknots: 0.041 Positive Predictive Value Contrafold: 0.571 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs Pknots Matthews Correlation Coefficient MXScarna(seed): 0.536 Pknots: 0.165 Sensitivity MXScarna(seed): 0.382 Pknots: 0.041 Positive Predictive Value MXScarna(seed): 0.753 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs Pknots Matthews Correlation Coefficient RNAalifold(20): 0.532 Pknots: 0.165 Sensitivity RNAalifold(20): 0.359 Pknots: 0.041 Positive Predictive Value RNAalifold(20): 0.787 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs Pknots Matthews Correlation Coefficient Sfold: 0.527 Pknots: 0.165 Sensitivity Sfold: 0.477 Pknots: 0.041 Positive Predictive Value Sfold: 0.582 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs Pknots Matthews Correlation Coefficient RNAalifold(seed): 0.523 Pknots: 0.165 Sensitivity RNAalifold(seed): 0.328 Pknots: 0.041 Positive Predictive Value RNAalifold(seed): 0.835 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs Pknots Matthews Correlation Coefficient MaxExpect: 0.516 Pknots: 0.165 Sensitivity MaxExpect: 0.505 Pknots: 0.041 Positive Predictive Value MaxExpect: 0.528 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs Pknots Matthews Correlation Coefficient ProbKnot: 0.512 Pknots: 0.165 Sensitivity ProbKnot: 0.508 Pknots: 0.041 Positive Predictive Value ProbKnot: 0.517 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs Pknots Matthews Correlation Coefficient MXScarna(20): 0.500 Pknots: 0.165 Sensitivity MXScarna(20): 0.353 Pknots: 0.041 Positive Predictive Value MXScarna(20): 0.710 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs Pknots Matthews Correlation Coefficient UNAFold: 0.494 Pknots: 0.165 Sensitivity UNAFold: 0.491 Pknots: 0.041 Positive Predictive Value UNAFold: 0.498 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs Pknots Matthews Correlation Coefficient Fold: 0.493 Pknots: 0.165 Sensitivity Fold: 0.496 Pknots: 0.041 Positive Predictive Value Fold: 0.490 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs Pknots Matthews Correlation Coefficient RNAfold: 0.485 Pknots: 0.165 Sensitivity RNAfold: 0.486 Pknots: 0.041 Positive Predictive Value RNAfold: 0.485 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs Pknots Matthews Correlation Coefficient PknotsRG: 0.474 Pknots: 0.165 Sensitivity PknotsRG: 0.440 Pknots: 0.041 Positive Predictive Value PknotsRG: 0.510 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs Pknots Matthews Correlation Coefficient CRWrnafold: 0.430 Pknots: 0.165 Sensitivity CRWrnafold: 0.379 Pknots: 0.041 Positive Predictive Value CRWrnafold: 0.490 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs Pknots Matthews Correlation Coefficient RNAsubopt: 0.422 Pknots: 0.165 Sensitivity RNAsubopt: 0.344 Pknots: 0.041 Positive Predictive Value RNAsubopt: 0.519 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs Pknots Matthews Correlation Coefficient TurboFold(20): 0.419 Pknots: 0.165 Sensitivity TurboFold(20): 0.210 Pknots: 0.041 Positive Predictive Value TurboFold(20): 0.837 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs Pknots Matthews Correlation Coefficient PPfold(20): 0.416 Pknots: 0.165 Sensitivity PPfold(20): 0.197 Pknots: 0.041 Positive Predictive Value PPfold(20): 0.879 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs Pknots Matthews Correlation Coefficient Afold: 0.408 Pknots: 0.165 Sensitivity Afold: 0.343 Pknots: 0.041 Positive Predictive Value Afold: 0.487 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs Pknots Matthews Correlation Coefficient Carnac(20): 0.401 Pknots: 0.165 Sensitivity Carnac(20): 0.180 Pknots: 0.041 Positive Predictive Value Carnac(20): 0.892 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs Pknots Matthews Correlation Coefficient McQFold: 0.389 Pknots: 0.165 Sensitivity McQFold: 0.308 Pknots: 0.041 Positive Predictive Value McQFold: 0.492 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs Pknots Matthews Correlation Coefficient RSpredict(20): 0.377 Pknots: 0.165 Sensitivity RSpredict(20): 0.241 Pknots: 0.041 Positive Predictive Value RSpredict(20): 0.590 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs Pknots Matthews Correlation Coefficient RNAshapes: 0.367 Pknots: 0.165 Sensitivity RNAshapes: 0.285 Pknots: 0.041 Positive Predictive Value RNAshapes: 0.474 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs Pknots Matthews Correlation Coefficient RNASLOpt: 0.364 Pknots: 0.165 Sensitivity RNASLOpt: 0.261 Pknots: 0.041 Positive Predictive Value RNASLOpt: 0.510 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs Pknots Matthews Correlation Coefficient Multilign(20): 0.350 Pknots: 0.165 Sensitivity Multilign(20): 0.161 Pknots: 0.041 Positive Predictive Value Multilign(20): 0.762 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs Pknots Matthews Correlation Coefficient Murlet(20): 0.321 Pknots: 0.165 Sensitivity Murlet(20): 0.131 Pknots: 0.041 Positive Predictive Value Murlet(20): 0.787 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs Pknots Matthews Correlation Coefficient RNAwolf: 0.310 Pknots: 0.165 Sensitivity RNAwolf: 0.261 Pknots: 0.041 Positive Predictive Value RNAwolf: 0.369 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs Pknots Matthews Correlation Coefficient RSpredict(seed): 0.295 Pknots: 0.165 Sensitivity RSpredict(seed): 0.146 Pknots: 0.041 Positive Predictive Value RSpredict(seed): 0.597 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs Pknots Matthews Correlation Coefficient CMfinder(20): 0.292 Pknots: 0.165 Sensitivity CMfinder(20): 0.107 Pknots: 0.041 Positive Predictive Value CMfinder(20): 0.794 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold4 vs Pknots Matthews Correlation Coefficient Vsfold4: 0.270 Pknots: 0.165 Sensitivity Vsfold4: 0.198 Pknots: 0.041 Positive Predictive Value Vsfold4: 0.371 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold5 vs Pknots Matthews Correlation Coefficient Vsfold5: 0.260 Pknots: 0.165 Sensitivity Vsfold5: 0.195 Pknots: 0.041 Positive Predictive Value Vsfold5: 0.347 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(20) vs Pknots Matthews Correlation Coefficient RNASampler(20): 0.246 Pknots: 0.165 Sensitivity RNASampler(20): 0.069 Pknots: 0.041 Positive Predictive Value RNASampler(20): 0.877 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 HotKnots vs Pknots Matthews Correlation Coefficient HotKnots: 0.212 Pknots: 0.165 Sensitivity HotKnots: 0.069 Pknots: 0.041 Positive Predictive Value HotKnots: 0.659 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Mastr(20) vs Pknots Matthews Correlation Coefficient Mastr(20): 0.187 Pknots: 0.165 Sensitivity Mastr(20): 0.044 Pknots: 0.041 Positive Predictive Value Mastr(20): 0.790 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Cylofold vs Pknots Matthews Correlation Coefficient Cylofold: 0.178 Pknots: 0.165 Sensitivity Cylofold: 0.053 Pknots: 0.041 Positive Predictive Value Cylofold: 0.597 Pknots: 0.662 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ Pknots vs Alterna Matthews Correlation Coefficient Pknots: 0.165 Alterna: 0.145 Sensitivity Pknots: 0.041 Alterna: 0.036 Positive Predictive Value Pknots: 0.662 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs MCFold Matthews Correlation Coefficient Pknots: 0.165 MCFold: 0.138 Sensitivity Pknots: 0.041 MCFold: 0.044 Positive Predictive Value Pknots: 0.662 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs RDfolder Matthews Correlation Coefficient Pknots: 0.165 RDfolder: 0.138 Sensitivity Pknots: 0.041 RDfolder: 0.031 Positive Predictive Value Pknots: 0.662 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs Murlet(seed) Matthews Correlation Coefficient Pknots: 0.165 Murlet(seed): 0.110 Sensitivity Pknots: 0.041 Murlet(seed): 0.015 Positive Predictive Value Pknots: 0.662 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs CMfinder(seed) Matthews Correlation Coefficient Pknots: 0.165 CMfinder(seed): 0.111 Sensitivity Pknots: 0.041 CMfinder(seed): 0.016 Positive Predictive Value Pknots: 0.662 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs TurboFold(seed) Matthews Correlation Coefficient Pknots: 0.165 TurboFold(seed): 0.106 Sensitivity Pknots: 0.041 TurboFold(seed): 0.014 Positive Predictive Value Pknots: 0.662 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs PPfold(seed) Matthews Correlation Coefficient Pknots: 0.165 PPfold(seed): 0.097 Sensitivity Pknots: 0.041 PPfold(seed): 0.012 Positive Predictive Value Pknots: 0.662 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs Carnac(seed) Matthews Correlation Coefficient Pknots: 0.165 Carnac(seed): 0.093 Sensitivity Pknots: 0.041 Carnac(seed): 0.010 Positive Predictive Value Pknots: 0.662 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs RNASampler(seed) Matthews Correlation Coefficient Pknots: 0.165 RNASampler(seed): 0.088 Sensitivity Pknots: 0.041 RNASampler(seed): 0.009 Positive Predictive Value Pknots: 0.662 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs Mastr(seed) Matthews Correlation Coefficient Pknots: 0.165 Mastr(seed): 0.072 Sensitivity Pknots: 0.041 Mastr(seed): 0.006 Positive Predictive Value Pknots: 0.662 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs NanoFolder Matthews Correlation Coefficient Pknots: 0.165 NanoFolder: 0.068 Sensitivity Pknots: 0.041 NanoFolder: 0.027 Positive Predictive Value Pknots: 0.662 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Pknots vs Multilign(seed) Matthews Correlation Coefficient Pknots: 0.165 Multilign(seed): 0.059 Sensitivity Pknots: 0.041 Multilign(seed): 0.005 Positive Predictive Value Pknots: 0.662 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
Alterna	1242 ContextFold vs Alterna Matthews Correlation Coefficient ContextFold: 0.754 Alterna: 0.145 Sensitivity ContextFold: 0.717 Alterna: 0.036 Positive Predictive Value ContextFold: 0.794 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs Alterna Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Alterna: 0.145 Sensitivity PETfold_pre2.0(seed): 0.667 Alterna: 0.036 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs Alterna Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Alterna: 0.145 Sensitivity CentroidAlifold(seed): 0.414 Alterna: 0.036 Positive Predictive Value CentroidAlifold(seed): 0.901 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs Alterna Matthews Correlation Coefficient IPknot: 0.607 Alterna: 0.145 Sensitivity IPknot: 0.551 Alterna: 0.036 Positive Predictive Value IPknot: 0.670 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs Alterna Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Alterna: 0.145 Sensitivity PETfold_pre2.0(20): 0.410 Alterna: 0.036 Positive Predictive Value PETfold_pre2.0(20): 0.807 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs Alterna Matthews Correlation Coefficient CentroidFold: 0.571 Alterna: 0.145 Sensitivity CentroidFold: 0.515 Alterna: 0.036 Positive Predictive Value CentroidFold: 0.633 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs Alterna Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Alterna: 0.145 Sensitivity CentroidAlifold(20): 0.369 Alterna: 0.036 Positive Predictive Value CentroidAlifold(20): 0.891 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs Alterna Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Alterna: 0.145 Sensitivity CentroidHomfold‑LAST: 0.359 Alterna: 0.036 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs Alterna Matthews Correlation Coefficient Contrafold: 0.556 Alterna: 0.145 Sensitivity Contrafold: 0.542 Alterna: 0.036 Positive Predictive Value Contrafold: 0.571 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs Alterna Matthews Correlation Coefficient MXScarna(seed): 0.536 Alterna: 0.145 Sensitivity MXScarna(seed): 0.382 Alterna: 0.036 Positive Predictive Value MXScarna(seed): 0.753 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs Alterna Matthews Correlation Coefficient RNAalifold(20): 0.532 Alterna: 0.145 Sensitivity RNAalifold(20): 0.359 Alterna: 0.036 Positive Predictive Value RNAalifold(20): 0.787 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs Alterna Matthews Correlation Coefficient Sfold: 0.527 Alterna: 0.145 Sensitivity Sfold: 0.477 Alterna: 0.036 Positive Predictive Value Sfold: 0.582 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs Alterna Matthews Correlation Coefficient RNAalifold(seed): 0.523 Alterna: 0.145 Sensitivity RNAalifold(seed): 0.328 Alterna: 0.036 Positive Predictive Value RNAalifold(seed): 0.835 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs Alterna Matthews Correlation Coefficient MaxExpect: 0.516 Alterna: 0.145 Sensitivity MaxExpect: 0.505 Alterna: 0.036 Positive Predictive Value MaxExpect: 0.528 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs Alterna Matthews Correlation Coefficient ProbKnot: 0.512 Alterna: 0.145 Sensitivity ProbKnot: 0.508 Alterna: 0.036 Positive Predictive Value ProbKnot: 0.517 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs Alterna Matthews Correlation Coefficient MXScarna(20): 0.500 Alterna: 0.145 Sensitivity MXScarna(20): 0.353 Alterna: 0.036 Positive Predictive Value MXScarna(20): 0.710 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs Alterna Matthews Correlation Coefficient UNAFold: 0.494 Alterna: 0.145 Sensitivity UNAFold: 0.491 Alterna: 0.036 Positive Predictive Value UNAFold: 0.498 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs Alterna Matthews Correlation Coefficient Fold: 0.493 Alterna: 0.145 Sensitivity Fold: 0.496 Alterna: 0.036 Positive Predictive Value Fold: 0.490 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs Alterna Matthews Correlation Coefficient RNAfold: 0.485 Alterna: 0.145 Sensitivity RNAfold: 0.486 Alterna: 0.036 Positive Predictive Value RNAfold: 0.485 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs Alterna Matthews Correlation Coefficient PknotsRG: 0.474 Alterna: 0.145 Sensitivity PknotsRG: 0.440 Alterna: 0.036 Positive Predictive Value PknotsRG: 0.510 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs Alterna Matthews Correlation Coefficient CRWrnafold: 0.430 Alterna: 0.145 Sensitivity CRWrnafold: 0.379 Alterna: 0.036 Positive Predictive Value CRWrnafold: 0.490 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs Alterna Matthews Correlation Coefficient RNAsubopt: 0.422 Alterna: 0.145 Sensitivity RNAsubopt: 0.344 Alterna: 0.036 Positive Predictive Value RNAsubopt: 0.519 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs Alterna Matthews Correlation Coefficient TurboFold(20): 0.419 Alterna: 0.145 Sensitivity TurboFold(20): 0.210 Alterna: 0.036 Positive Predictive Value TurboFold(20): 0.837 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs Alterna Matthews Correlation Coefficient PPfold(20): 0.416 Alterna: 0.145 Sensitivity PPfold(20): 0.197 Alterna: 0.036 Positive Predictive Value PPfold(20): 0.879 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs Alterna Matthews Correlation Coefficient Afold: 0.408 Alterna: 0.145 Sensitivity Afold: 0.343 Alterna: 0.036 Positive Predictive Value Afold: 0.487 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs Alterna Matthews Correlation Coefficient Carnac(20): 0.401 Alterna: 0.145 Sensitivity Carnac(20): 0.180 Alterna: 0.036 Positive Predictive Value Carnac(20): 0.892 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs Alterna Matthews Correlation Coefficient McQFold: 0.389 Alterna: 0.145 Sensitivity McQFold: 0.308 Alterna: 0.036 Positive Predictive Value McQFold: 0.492 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs Alterna Matthews Correlation Coefficient RSpredict(20): 0.377 Alterna: 0.145 Sensitivity RSpredict(20): 0.241 Alterna: 0.036 Positive Predictive Value RSpredict(20): 0.590 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs Alterna Matthews Correlation Coefficient RNAshapes: 0.367 Alterna: 0.145 Sensitivity RNAshapes: 0.285 Alterna: 0.036 Positive Predictive Value RNAshapes: 0.474 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs Alterna Matthews Correlation Coefficient RNASLOpt: 0.364 Alterna: 0.145 Sensitivity RNASLOpt: 0.261 Alterna: 0.036 Positive Predictive Value RNASLOpt: 0.510 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs Alterna Matthews Correlation Coefficient Multilign(20): 0.350 Alterna: 0.145 Sensitivity Multilign(20): 0.161 Alterna: 0.036 Positive Predictive Value Multilign(20): 0.762 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs Alterna Matthews Correlation Coefficient Murlet(20): 0.321 Alterna: 0.145 Sensitivity Murlet(20): 0.131 Alterna: 0.036 Positive Predictive Value Murlet(20): 0.787 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs Alterna Matthews Correlation Coefficient RNAwolf: 0.310 Alterna: 0.145 Sensitivity RNAwolf: 0.261 Alterna: 0.036 Positive Predictive Value RNAwolf: 0.369 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs Alterna Matthews Correlation Coefficient RSpredict(seed): 0.295 Alterna: 0.145 Sensitivity RSpredict(seed): 0.146 Alterna: 0.036 Positive Predictive Value RSpredict(seed): 0.597 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs Alterna Matthews Correlation Coefficient CMfinder(20): 0.292 Alterna: 0.145 Sensitivity CMfinder(20): 0.107 Alterna: 0.036 Positive Predictive Value CMfinder(20): 0.794 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold4 vs Alterna Matthews Correlation Coefficient Vsfold4: 0.270 Alterna: 0.145 Sensitivity Vsfold4: 0.198 Alterna: 0.036 Positive Predictive Value Vsfold4: 0.371 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold5 vs Alterna Matthews Correlation Coefficient Vsfold5: 0.260 Alterna: 0.145 Sensitivity Vsfold5: 0.195 Alterna: 0.036 Positive Predictive Value Vsfold5: 0.347 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(20) vs Alterna Matthews Correlation Coefficient RNASampler(20): 0.246 Alterna: 0.145 Sensitivity RNASampler(20): 0.069 Alterna: 0.036 Positive Predictive Value RNASampler(20): 0.877 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 HotKnots vs Alterna Matthews Correlation Coefficient HotKnots: 0.212 Alterna: 0.145 Sensitivity HotKnots: 0.069 Alterna: 0.036 Positive Predictive Value HotKnots: 0.659 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Mastr(20) vs Alterna Matthews Correlation Coefficient Mastr(20): 0.187 Alterna: 0.145 Sensitivity Mastr(20): 0.044 Alterna: 0.036 Positive Predictive Value Mastr(20): 0.790 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Cylofold vs Alterna Matthews Correlation Coefficient Cylofold: 0.178 Alterna: 0.145 Sensitivity Cylofold: 0.053 Alterna: 0.036 Positive Predictive Value Cylofold: 0.597 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Pknots vs Alterna Matthews Correlation Coefficient Pknots: 0.165 Alterna: 0.145 Sensitivity Pknots: 0.041 Alterna: 0.036 Positive Predictive Value Pknots: 0.662 Alterna: 0.582 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ Alterna vs MCFold Matthews Correlation Coefficient Alterna: 0.145 MCFold: 0.138 Sensitivity Alterna: 0.036 MCFold: 0.044 Positive Predictive Value Alterna: 0.582 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs RDfolder Matthews Correlation Coefficient Alterna: 0.145 RDfolder: 0.138 Sensitivity Alterna: 0.036 RDfolder: 0.031 Positive Predictive Value Alterna: 0.582 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs Murlet(seed) Matthews Correlation Coefficient Alterna: 0.145 Murlet(seed): 0.110 Sensitivity Alterna: 0.036 Murlet(seed): 0.015 Positive Predictive Value Alterna: 0.582 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs CMfinder(seed) Matthews Correlation Coefficient Alterna: 0.145 CMfinder(seed): 0.111 Sensitivity Alterna: 0.036 CMfinder(seed): 0.016 Positive Predictive Value Alterna: 0.582 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs TurboFold(seed) Matthews Correlation Coefficient Alterna: 0.145 TurboFold(seed): 0.106 Sensitivity Alterna: 0.036 TurboFold(seed): 0.014 Positive Predictive Value Alterna: 0.582 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs PPfold(seed) Matthews Correlation Coefficient Alterna: 0.145 PPfold(seed): 0.097 Sensitivity Alterna: 0.036 PPfold(seed): 0.012 Positive Predictive Value Alterna: 0.582 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs Carnac(seed) Matthews Correlation Coefficient Alterna: 0.145 Carnac(seed): 0.093 Sensitivity Alterna: 0.036 Carnac(seed): 0.010 Positive Predictive Value Alterna: 0.582 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs RNASampler(seed) Matthews Correlation Coefficient Alterna: 0.145 RNASampler(seed): 0.088 Sensitivity Alterna: 0.036 RNASampler(seed): 0.009 Positive Predictive Value Alterna: 0.582 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs Mastr(seed) Matthews Correlation Coefficient Alterna: 0.145 Mastr(seed): 0.072 Sensitivity Alterna: 0.036 Mastr(seed): 0.006 Positive Predictive Value Alterna: 0.582 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs NanoFolder Matthews Correlation Coefficient Alterna: 0.145 NanoFolder: 0.068 Sensitivity Alterna: 0.036 NanoFolder: 0.027 Positive Predictive Value Alterna: 0.582 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Alterna vs Multilign(seed) Matthews Correlation Coefficient Alterna: 0.145 Multilign(seed): 0.059 Sensitivity Alterna: 0.036 Multilign(seed): 0.005 Positive Predictive Value Alterna: 0.582 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
MCFold	1242 ContextFold vs MCFold Matthews Correlation Coefficient ContextFold: 0.754 MCFold: 0.138 Sensitivity ContextFold: 0.717 MCFold: 0.044 Positive Predictive Value ContextFold: 0.794 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs MCFold Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 MCFold: 0.138 Sensitivity PETfold_pre2.0(seed): 0.667 MCFold: 0.044 Positive Predictive Value PETfold_pre2.0(seed): 0.814 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs MCFold Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 MCFold: 0.138 Sensitivity CentroidAlifold(seed): 0.414 MCFold: 0.044 Positive Predictive Value CentroidAlifold(seed): 0.901 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs MCFold Matthews Correlation Coefficient IPknot: 0.607 MCFold: 0.138 Sensitivity IPknot: 0.551 MCFold: 0.044 Positive Predictive Value IPknot: 0.670 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs MCFold Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 MCFold: 0.138 Sensitivity PETfold_pre2.0(20): 0.410 MCFold: 0.044 Positive Predictive Value PETfold_pre2.0(20): 0.807 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs MCFold Matthews Correlation Coefficient CentroidFold: 0.571 MCFold: 0.138 Sensitivity CentroidFold: 0.515 MCFold: 0.044 Positive Predictive Value CentroidFold: 0.633 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs MCFold Matthews Correlation Coefficient CentroidAlifold(20): 0.573 MCFold: 0.138 Sensitivity CentroidAlifold(20): 0.369 MCFold: 0.044 Positive Predictive Value CentroidAlifold(20): 0.891 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs MCFold Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 MCFold: 0.138 Sensitivity CentroidHomfold‑LAST: 0.359 MCFold: 0.044 Positive Predictive Value CentroidHomfold‑LAST: 0.874 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs MCFold Matthews Correlation Coefficient Contrafold: 0.556 MCFold: 0.138 Sensitivity Contrafold: 0.542 MCFold: 0.044 Positive Predictive Value Contrafold: 0.571 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs MCFold Matthews Correlation Coefficient MXScarna(seed): 0.536 MCFold: 0.138 Sensitivity MXScarna(seed): 0.382 MCFold: 0.044 Positive Predictive Value MXScarna(seed): 0.753 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs MCFold Matthews Correlation Coefficient RNAalifold(20): 0.532 MCFold: 0.138 Sensitivity RNAalifold(20): 0.359 MCFold: 0.044 Positive Predictive Value RNAalifold(20): 0.787 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs MCFold Matthews Correlation Coefficient Sfold: 0.527 MCFold: 0.138 Sensitivity Sfold: 0.477 MCFold: 0.044 Positive Predictive Value Sfold: 0.582 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs MCFold Matthews Correlation Coefficient RNAalifold(seed): 0.523 MCFold: 0.138 Sensitivity RNAalifold(seed): 0.328 MCFold: 0.044 Positive Predictive Value RNAalifold(seed): 0.835 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs MCFold Matthews Correlation Coefficient MaxExpect: 0.516 MCFold: 0.138 Sensitivity MaxExpect: 0.505 MCFold: 0.044 Positive Predictive Value MaxExpect: 0.528 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs MCFold Matthews Correlation Coefficient ProbKnot: 0.512 MCFold: 0.138 Sensitivity ProbKnot: 0.508 MCFold: 0.044 Positive Predictive Value ProbKnot: 0.517 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs MCFold Matthews Correlation Coefficient MXScarna(20): 0.500 MCFold: 0.138 Sensitivity MXScarna(20): 0.353 MCFold: 0.044 Positive Predictive Value MXScarna(20): 0.710 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs MCFold Matthews Correlation Coefficient UNAFold: 0.494 MCFold: 0.138 Sensitivity UNAFold: 0.491 MCFold: 0.044 Positive Predictive Value UNAFold: 0.498 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs MCFold Matthews Correlation Coefficient Fold: 0.493 MCFold: 0.138 Sensitivity Fold: 0.496 MCFold: 0.044 Positive Predictive Value Fold: 0.490 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs MCFold Matthews Correlation Coefficient RNAfold: 0.485 MCFold: 0.138 Sensitivity RNAfold: 0.486 MCFold: 0.044 Positive Predictive Value RNAfold: 0.485 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs MCFold Matthews Correlation Coefficient PknotsRG: 0.474 MCFold: 0.138 Sensitivity PknotsRG: 0.440 MCFold: 0.044 Positive Predictive Value PknotsRG: 0.510 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs MCFold Matthews Correlation Coefficient CRWrnafold: 0.430 MCFold: 0.138 Sensitivity CRWrnafold: 0.379 MCFold: 0.044 Positive Predictive Value CRWrnafold: 0.490 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs MCFold Matthews Correlation Coefficient RNAsubopt: 0.422 MCFold: 0.138 Sensitivity RNAsubopt: 0.344 MCFold: 0.044 Positive Predictive Value RNAsubopt: 0.519 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs MCFold Matthews Correlation Coefficient TurboFold(20): 0.419 MCFold: 0.138 Sensitivity TurboFold(20): 0.210 MCFold: 0.044 Positive Predictive Value TurboFold(20): 0.837 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs MCFold Matthews Correlation Coefficient PPfold(20): 0.416 MCFold: 0.138 Sensitivity PPfold(20): 0.197 MCFold: 0.044 Positive Predictive Value PPfold(20): 0.879 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs MCFold Matthews Correlation Coefficient Afold: 0.408 MCFold: 0.138 Sensitivity Afold: 0.343 MCFold: 0.044 Positive Predictive Value Afold: 0.487 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs MCFold Matthews Correlation Coefficient Carnac(20): 0.401 MCFold: 0.138 Sensitivity Carnac(20): 0.180 MCFold: 0.044 Positive Predictive Value Carnac(20): 0.892 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs MCFold Matthews Correlation Coefficient McQFold: 0.389 MCFold: 0.138 Sensitivity McQFold: 0.308 MCFold: 0.044 Positive Predictive Value McQFold: 0.492 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs MCFold Matthews Correlation Coefficient RSpredict(20): 0.377 MCFold: 0.138 Sensitivity RSpredict(20): 0.241 MCFold: 0.044 Positive Predictive Value RSpredict(20): 0.590 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs MCFold Matthews Correlation Coefficient RNAshapes: 0.367 MCFold: 0.138 Sensitivity RNAshapes: 0.285 MCFold: 0.044 Positive Predictive Value RNAshapes: 0.474 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs MCFold Matthews Correlation Coefficient RNASLOpt: 0.364 MCFold: 0.138 Sensitivity RNASLOpt: 0.261 MCFold: 0.044 Positive Predictive Value RNASLOpt: 0.510 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs MCFold Matthews Correlation Coefficient Multilign(20): 0.350 MCFold: 0.138 Sensitivity Multilign(20): 0.161 MCFold: 0.044 Positive Predictive Value Multilign(20): 0.762 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs MCFold Matthews Correlation Coefficient Murlet(20): 0.321 MCFold: 0.138 Sensitivity Murlet(20): 0.131 MCFold: 0.044 Positive Predictive Value Murlet(20): 0.787 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs MCFold Matthews Correlation Coefficient RNAwolf: 0.310 MCFold: 0.138 Sensitivity RNAwolf: 0.261 MCFold: 0.044 Positive Predictive Value RNAwolf: 0.369 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs MCFold Matthews Correlation Coefficient RSpredict(seed): 0.295 MCFold: 0.138 Sensitivity RSpredict(seed): 0.146 MCFold: 0.044 Positive Predictive Value RSpredict(seed): 0.597 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs MCFold Matthews Correlation Coefficient CMfinder(20): 0.292 MCFold: 0.138 Sensitivity CMfinder(20): 0.107 MCFold: 0.044 Positive Predictive Value CMfinder(20): 0.794 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold4 vs MCFold Matthews Correlation Coefficient Vsfold4: 0.270 MCFold: 0.138 Sensitivity Vsfold4: 0.198 MCFold: 0.044 Positive Predictive Value Vsfold4: 0.371 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold5 vs MCFold Matthews Correlation Coefficient Vsfold5: 0.260 MCFold: 0.138 Sensitivity Vsfold5: 0.195 MCFold: 0.044 Positive Predictive Value Vsfold5: 0.347 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(20) vs MCFold Matthews Correlation Coefficient RNASampler(20): 0.246 MCFold: 0.138 Sensitivity RNASampler(20): 0.069 MCFold: 0.044 Positive Predictive Value RNASampler(20): 0.877 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 HotKnots vs MCFold Matthews Correlation Coefficient HotKnots: 0.212 MCFold: 0.138 Sensitivity HotKnots: 0.069 MCFold: 0.044 Positive Predictive Value HotKnots: 0.659 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Mastr(20) vs MCFold Matthews Correlation Coefficient Mastr(20): 0.187 MCFold: 0.138 Sensitivity Mastr(20): 0.044 MCFold: 0.044 Positive Predictive Value Mastr(20): 0.790 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Cylofold vs MCFold Matthews Correlation Coefficient Cylofold: 0.178 MCFold: 0.138 Sensitivity Cylofold: 0.053 MCFold: 0.044 Positive Predictive Value Cylofold: 0.597 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Pknots vs MCFold Matthews Correlation Coefficient Pknots: 0.165 MCFold: 0.138 Sensitivity Pknots: 0.041 MCFold: 0.044 Positive Predictive Value Pknots: 0.662 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Alterna vs MCFold Matthews Correlation Coefficient Alterna: 0.145 MCFold: 0.138 Sensitivity Alterna: 0.036 MCFold: 0.044 Positive Predictive Value Alterna: 0.582 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		= RDfolder vs MCFold Matthews Correlation Coefficient RDfolder: 0.138 MCFold: 0.138 Sensitivity RDfolder: 0.031 MCFold: 0.044 Positive Predictive Value RDfolder: 0.615 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 0.0186613811547	+ MCFold vs Murlet(seed) Matthews Correlation Coefficient MCFold: 0.138 Murlet(seed): 0.110 Sensitivity MCFold: 0.044 Murlet(seed): 0.015 Positive Predictive Value MCFold: 0.432 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MCFold vs CMfinder(seed) Matthews Correlation Coefficient MCFold: 0.138 CMfinder(seed): 0.111 Sensitivity MCFold: 0.044 CMfinder(seed): 0.016 Positive Predictive Value MCFold: 0.432 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MCFold vs TurboFold(seed) Matthews Correlation Coefficient MCFold: 0.138 TurboFold(seed): 0.106 Sensitivity MCFold: 0.044 TurboFold(seed): 0.014 Positive Predictive Value MCFold: 0.432 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MCFold vs PPfold(seed) Matthews Correlation Coefficient MCFold: 0.138 PPfold(seed): 0.097 Sensitivity MCFold: 0.044 PPfold(seed): 0.012 Positive Predictive Value MCFold: 0.432 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MCFold vs Carnac(seed) Matthews Correlation Coefficient MCFold: 0.138 Carnac(seed): 0.093 Sensitivity MCFold: 0.044 Carnac(seed): 0.010 Positive Predictive Value MCFold: 0.432 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MCFold vs RNASampler(seed) Matthews Correlation Coefficient MCFold: 0.138 RNASampler(seed): 0.088 Sensitivity MCFold: 0.044 RNASampler(seed): 0.009 Positive Predictive Value MCFold: 0.432 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MCFold vs Mastr(seed) Matthews Correlation Coefficient MCFold: 0.138 Mastr(seed): 0.072 Sensitivity MCFold: 0.044 Mastr(seed): 0.006 Positive Predictive Value MCFold: 0.432 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MCFold vs NanoFolder Matthews Correlation Coefficient MCFold: 0.138 NanoFolder: 0.068 Sensitivity MCFold: 0.044 NanoFolder: 0.027 Positive Predictive Value MCFold: 0.432 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ MCFold vs Multilign(seed) Matthews Correlation Coefficient MCFold: 0.138 Multilign(seed): 0.059 Sensitivity MCFold: 0.044 Multilign(seed): 0.005 Positive Predictive Value MCFold: 0.432 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
RDfolder	1242 ContextFold vs RDfolder Matthews Correlation Coefficient ContextFold: 0.754 RDfolder: 0.138 Sensitivity ContextFold: 0.717 RDfolder: 0.031 Positive Predictive Value ContextFold: 0.794 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs RDfolder Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RDfolder: 0.138 Sensitivity PETfold_pre2.0(seed): 0.667 RDfolder: 0.031 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs RDfolder Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RDfolder: 0.138 Sensitivity CentroidAlifold(seed): 0.414 RDfolder: 0.031 Positive Predictive Value CentroidAlifold(seed): 0.901 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs RDfolder Matthews Correlation Coefficient IPknot: 0.607 RDfolder: 0.138 Sensitivity IPknot: 0.551 RDfolder: 0.031 Positive Predictive Value IPknot: 0.670 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs RDfolder Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RDfolder: 0.138 Sensitivity PETfold_pre2.0(20): 0.410 RDfolder: 0.031 Positive Predictive Value PETfold_pre2.0(20): 0.807 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs RDfolder Matthews Correlation Coefficient CentroidFold: 0.571 RDfolder: 0.138 Sensitivity CentroidFold: 0.515 RDfolder: 0.031 Positive Predictive Value CentroidFold: 0.633 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs RDfolder Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RDfolder: 0.138 Sensitivity CentroidAlifold(20): 0.369 RDfolder: 0.031 Positive Predictive Value CentroidAlifold(20): 0.891 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs RDfolder Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RDfolder: 0.138 Sensitivity CentroidHomfold‑LAST: 0.359 RDfolder: 0.031 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs RDfolder Matthews Correlation Coefficient Contrafold: 0.556 RDfolder: 0.138 Sensitivity Contrafold: 0.542 RDfolder: 0.031 Positive Predictive Value Contrafold: 0.571 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs RDfolder Matthews Correlation Coefficient MXScarna(seed): 0.536 RDfolder: 0.138 Sensitivity MXScarna(seed): 0.382 RDfolder: 0.031 Positive Predictive Value MXScarna(seed): 0.753 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs RDfolder Matthews Correlation Coefficient RNAalifold(20): 0.532 RDfolder: 0.138 Sensitivity RNAalifold(20): 0.359 RDfolder: 0.031 Positive Predictive Value RNAalifold(20): 0.787 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs RDfolder Matthews Correlation Coefficient Sfold: 0.527 RDfolder: 0.138 Sensitivity Sfold: 0.477 RDfolder: 0.031 Positive Predictive Value Sfold: 0.582 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs RDfolder Matthews Correlation Coefficient RNAalifold(seed): 0.523 RDfolder: 0.138 Sensitivity RNAalifold(seed): 0.328 RDfolder: 0.031 Positive Predictive Value RNAalifold(seed): 0.835 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs RDfolder Matthews Correlation Coefficient MaxExpect: 0.516 RDfolder: 0.138 Sensitivity MaxExpect: 0.505 RDfolder: 0.031 Positive Predictive Value MaxExpect: 0.528 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs RDfolder Matthews Correlation Coefficient ProbKnot: 0.512 RDfolder: 0.138 Sensitivity ProbKnot: 0.508 RDfolder: 0.031 Positive Predictive Value ProbKnot: 0.517 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs RDfolder Matthews Correlation Coefficient MXScarna(20): 0.500 RDfolder: 0.138 Sensitivity MXScarna(20): 0.353 RDfolder: 0.031 Positive Predictive Value MXScarna(20): 0.710 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs RDfolder Matthews Correlation Coefficient UNAFold: 0.494 RDfolder: 0.138 Sensitivity UNAFold: 0.491 RDfolder: 0.031 Positive Predictive Value UNAFold: 0.498 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs RDfolder Matthews Correlation Coefficient Fold: 0.493 RDfolder: 0.138 Sensitivity Fold: 0.496 RDfolder: 0.031 Positive Predictive Value Fold: 0.490 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs RDfolder Matthews Correlation Coefficient RNAfold: 0.485 RDfolder: 0.138 Sensitivity RNAfold: 0.486 RDfolder: 0.031 Positive Predictive Value RNAfold: 0.485 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs RDfolder Matthews Correlation Coefficient PknotsRG: 0.474 RDfolder: 0.138 Sensitivity PknotsRG: 0.440 RDfolder: 0.031 Positive Predictive Value PknotsRG: 0.510 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs RDfolder Matthews Correlation Coefficient CRWrnafold: 0.430 RDfolder: 0.138 Sensitivity CRWrnafold: 0.379 RDfolder: 0.031 Positive Predictive Value CRWrnafold: 0.490 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs RDfolder Matthews Correlation Coefficient RNAsubopt: 0.422 RDfolder: 0.138 Sensitivity RNAsubopt: 0.344 RDfolder: 0.031 Positive Predictive Value RNAsubopt: 0.519 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs RDfolder Matthews Correlation Coefficient TurboFold(20): 0.419 RDfolder: 0.138 Sensitivity TurboFold(20): 0.210 RDfolder: 0.031 Positive Predictive Value TurboFold(20): 0.837 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs RDfolder Matthews Correlation Coefficient PPfold(20): 0.416 RDfolder: 0.138 Sensitivity PPfold(20): 0.197 RDfolder: 0.031 Positive Predictive Value PPfold(20): 0.879 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs RDfolder Matthews Correlation Coefficient Afold: 0.408 RDfolder: 0.138 Sensitivity Afold: 0.343 RDfolder: 0.031 Positive Predictive Value Afold: 0.487 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs RDfolder Matthews Correlation Coefficient Carnac(20): 0.401 RDfolder: 0.138 Sensitivity Carnac(20): 0.180 RDfolder: 0.031 Positive Predictive Value Carnac(20): 0.892 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs RDfolder Matthews Correlation Coefficient McQFold: 0.389 RDfolder: 0.138 Sensitivity McQFold: 0.308 RDfolder: 0.031 Positive Predictive Value McQFold: 0.492 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs RDfolder Matthews Correlation Coefficient RSpredict(20): 0.377 RDfolder: 0.138 Sensitivity RSpredict(20): 0.241 RDfolder: 0.031 Positive Predictive Value RSpredict(20): 0.590 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs RDfolder Matthews Correlation Coefficient RNAshapes: 0.367 RDfolder: 0.138 Sensitivity RNAshapes: 0.285 RDfolder: 0.031 Positive Predictive Value RNAshapes: 0.474 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs RDfolder Matthews Correlation Coefficient RNASLOpt: 0.364 RDfolder: 0.138 Sensitivity RNASLOpt: 0.261 RDfolder: 0.031 Positive Predictive Value RNASLOpt: 0.510 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs RDfolder Matthews Correlation Coefficient Multilign(20): 0.350 RDfolder: 0.138 Sensitivity Multilign(20): 0.161 RDfolder: 0.031 Positive Predictive Value Multilign(20): 0.762 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs RDfolder Matthews Correlation Coefficient Murlet(20): 0.321 RDfolder: 0.138 Sensitivity Murlet(20): 0.131 RDfolder: 0.031 Positive Predictive Value Murlet(20): 0.787 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs RDfolder Matthews Correlation Coefficient RNAwolf: 0.310 RDfolder: 0.138 Sensitivity RNAwolf: 0.261 RDfolder: 0.031 Positive Predictive Value RNAwolf: 0.369 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs RDfolder Matthews Correlation Coefficient RSpredict(seed): 0.295 RDfolder: 0.138 Sensitivity RSpredict(seed): 0.146 RDfolder: 0.031 Positive Predictive Value RSpredict(seed): 0.597 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs RDfolder Matthews Correlation Coefficient CMfinder(20): 0.292 RDfolder: 0.138 Sensitivity CMfinder(20): 0.107 RDfolder: 0.031 Positive Predictive Value CMfinder(20): 0.794 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold4 vs RDfolder Matthews Correlation Coefficient Vsfold4: 0.270 RDfolder: 0.138 Sensitivity Vsfold4: 0.198 RDfolder: 0.031 Positive Predictive Value Vsfold4: 0.371 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold5 vs RDfolder Matthews Correlation Coefficient Vsfold5: 0.260 RDfolder: 0.138 Sensitivity Vsfold5: 0.195 RDfolder: 0.031 Positive Predictive Value Vsfold5: 0.347 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(20) vs RDfolder Matthews Correlation Coefficient RNASampler(20): 0.246 RDfolder: 0.138 Sensitivity RNASampler(20): 0.069 RDfolder: 0.031 Positive Predictive Value RNASampler(20): 0.877 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 HotKnots vs RDfolder Matthews Correlation Coefficient HotKnots: 0.212 RDfolder: 0.138 Sensitivity HotKnots: 0.069 RDfolder: 0.031 Positive Predictive Value HotKnots: 0.659 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Mastr(20) vs RDfolder Matthews Correlation Coefficient Mastr(20): 0.187 RDfolder: 0.138 Sensitivity Mastr(20): 0.044 RDfolder: 0.031 Positive Predictive Value Mastr(20): 0.790 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Cylofold vs RDfolder Matthews Correlation Coefficient Cylofold: 0.178 RDfolder: 0.138 Sensitivity Cylofold: 0.053 RDfolder: 0.031 Positive Predictive Value Cylofold: 0.597 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Pknots vs RDfolder Matthews Correlation Coefficient Pknots: 0.165 RDfolder: 0.138 Sensitivity Pknots: 0.041 RDfolder: 0.031 Positive Predictive Value Pknots: 0.662 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Alterna vs RDfolder Matthews Correlation Coefficient Alterna: 0.145 RDfolder: 0.138 Sensitivity Alterna: 0.036 RDfolder: 0.031 Positive Predictive Value Alterna: 0.582 RDfolder: 0.615 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RDfolder vs MCFold Matthews Correlation Coefficient RDfolder: 0.138 MCFold: 0.138 Sensitivity RDfolder: 0.031 MCFold: 0.044 Positive Predictive Value RDfolder: 0.615 MCFold: 0.432 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 0.0186613811547		+ RDfolder vs Murlet(seed) Matthews Correlation Coefficient RDfolder: 0.138 Murlet(seed): 0.110 Sensitivity RDfolder: 0.031 Murlet(seed): 0.015 Positive Predictive Value RDfolder: 0.615 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RDfolder vs CMfinder(seed) Matthews Correlation Coefficient RDfolder: 0.138 CMfinder(seed): 0.111 Sensitivity RDfolder: 0.031 CMfinder(seed): 0.016 Positive Predictive Value RDfolder: 0.615 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RDfolder vs TurboFold(seed) Matthews Correlation Coefficient RDfolder: 0.138 TurboFold(seed): 0.106 Sensitivity RDfolder: 0.031 TurboFold(seed): 0.014 Positive Predictive Value RDfolder: 0.615 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RDfolder vs PPfold(seed) Matthews Correlation Coefficient RDfolder: 0.138 PPfold(seed): 0.097 Sensitivity RDfolder: 0.031 PPfold(seed): 0.012 Positive Predictive Value RDfolder: 0.615 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RDfolder vs Carnac(seed) Matthews Correlation Coefficient RDfolder: 0.138 Carnac(seed): 0.093 Sensitivity RDfolder: 0.031 Carnac(seed): 0.010 Positive Predictive Value RDfolder: 0.615 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RDfolder vs RNASampler(seed) Matthews Correlation Coefficient RDfolder: 0.138 RNASampler(seed): 0.088 Sensitivity RDfolder: 0.031 RNASampler(seed): 0.009 Positive Predictive Value RDfolder: 0.615 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RDfolder vs Mastr(seed) Matthews Correlation Coefficient RDfolder: 0.138 Mastr(seed): 0.072 Sensitivity RDfolder: 0.031 Mastr(seed): 0.006 Positive Predictive Value RDfolder: 0.615 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RDfolder vs NanoFolder Matthews Correlation Coefficient RDfolder: 0.138 NanoFolder: 0.068 Sensitivity RDfolder: 0.031 NanoFolder: 0.027 Positive Predictive Value RDfolder: 0.615 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RDfolder vs Multilign(seed) Matthews Correlation Coefficient RDfolder: 0.138 Multilign(seed): 0.059 Sensitivity RDfolder: 0.031 Multilign(seed): 0.005 Positive Predictive Value RDfolder: 0.615 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
Murlet(seed)	1242 ContextFold vs Murlet(seed) Matthews Correlation Coefficient ContextFold: 0.754 Murlet(seed): 0.110 Sensitivity ContextFold: 0.717 Murlet(seed): 0.015 Positive Predictive Value ContextFold: 0.794 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs Murlet(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Murlet(seed): 0.110 Sensitivity PETfold_pre2.0(seed): 0.667 Murlet(seed): 0.015 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs Murlet(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Murlet(seed): 0.110 Sensitivity CentroidAlifold(seed): 0.414 Murlet(seed): 0.015 Positive Predictive Value CentroidAlifold(seed): 0.901 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs Murlet(seed) Matthews Correlation Coefficient IPknot: 0.607 Murlet(seed): 0.110 Sensitivity IPknot: 0.551 Murlet(seed): 0.015 Positive Predictive Value IPknot: 0.670 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs Murlet(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Murlet(seed): 0.110 Sensitivity PETfold_pre2.0(20): 0.410 Murlet(seed): 0.015 Positive Predictive Value PETfold_pre2.0(20): 0.807 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs Murlet(seed) Matthews Correlation Coefficient CentroidFold: 0.571 Murlet(seed): 0.110 Sensitivity CentroidFold: 0.515 Murlet(seed): 0.015 Positive Predictive Value CentroidFold: 0.633 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs Murlet(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Murlet(seed): 0.110 Sensitivity CentroidAlifold(20): 0.369 Murlet(seed): 0.015 Positive Predictive Value CentroidAlifold(20): 0.891 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs Murlet(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Murlet(seed): 0.110 Sensitivity CentroidHomfold‑LAST: 0.359 Murlet(seed): 0.015 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs Murlet(seed) Matthews Correlation Coefficient Contrafold: 0.556 Murlet(seed): 0.110 Sensitivity Contrafold: 0.542 Murlet(seed): 0.015 Positive Predictive Value Contrafold: 0.571 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs Murlet(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 Murlet(seed): 0.110 Sensitivity MXScarna(seed): 0.382 Murlet(seed): 0.015 Positive Predictive Value MXScarna(seed): 0.753 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs Murlet(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 Murlet(seed): 0.110 Sensitivity RNAalifold(20): 0.359 Murlet(seed): 0.015 Positive Predictive Value RNAalifold(20): 0.787 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs Murlet(seed) Matthews Correlation Coefficient Sfold: 0.527 Murlet(seed): 0.110 Sensitivity Sfold: 0.477 Murlet(seed): 0.015 Positive Predictive Value Sfold: 0.582 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs Murlet(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.523 Murlet(seed): 0.110 Sensitivity RNAalifold(seed): 0.328 Murlet(seed): 0.015 Positive Predictive Value RNAalifold(seed): 0.835 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs Murlet(seed) Matthews Correlation Coefficient MaxExpect: 0.516 Murlet(seed): 0.110 Sensitivity MaxExpect: 0.505 Murlet(seed): 0.015 Positive Predictive Value MaxExpect: 0.528 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs Murlet(seed) Matthews Correlation Coefficient ProbKnot: 0.512 Murlet(seed): 0.110 Sensitivity ProbKnot: 0.508 Murlet(seed): 0.015 Positive Predictive Value ProbKnot: 0.517 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs Murlet(seed) Matthews Correlation Coefficient MXScarna(20): 0.500 Murlet(seed): 0.110 Sensitivity MXScarna(20): 0.353 Murlet(seed): 0.015 Positive Predictive Value MXScarna(20): 0.710 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs Murlet(seed) Matthews Correlation Coefficient UNAFold: 0.494 Murlet(seed): 0.110 Sensitivity UNAFold: 0.491 Murlet(seed): 0.015 Positive Predictive Value UNAFold: 0.498 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs Murlet(seed) Matthews Correlation Coefficient Fold: 0.493 Murlet(seed): 0.110 Sensitivity Fold: 0.496 Murlet(seed): 0.015 Positive Predictive Value Fold: 0.490 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs Murlet(seed) Matthews Correlation Coefficient RNAfold: 0.485 Murlet(seed): 0.110 Sensitivity RNAfold: 0.486 Murlet(seed): 0.015 Positive Predictive Value RNAfold: 0.485 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs Murlet(seed) Matthews Correlation Coefficient PknotsRG: 0.474 Murlet(seed): 0.110 Sensitivity PknotsRG: 0.440 Murlet(seed): 0.015 Positive Predictive Value PknotsRG: 0.510 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs Murlet(seed) Matthews Correlation Coefficient CRWrnafold: 0.430 Murlet(seed): 0.110 Sensitivity CRWrnafold: 0.379 Murlet(seed): 0.015 Positive Predictive Value CRWrnafold: 0.490 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs Murlet(seed) Matthews Correlation Coefficient RNAsubopt: 0.422 Murlet(seed): 0.110 Sensitivity RNAsubopt: 0.344 Murlet(seed): 0.015 Positive Predictive Value RNAsubopt: 0.519 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs Murlet(seed) Matthews Correlation Coefficient TurboFold(20): 0.419 Murlet(seed): 0.110 Sensitivity TurboFold(20): 0.210 Murlet(seed): 0.015 Positive Predictive Value TurboFold(20): 0.837 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs Murlet(seed) Matthews Correlation Coefficient PPfold(20): 0.416 Murlet(seed): 0.110 Sensitivity PPfold(20): 0.197 Murlet(seed): 0.015 Positive Predictive Value PPfold(20): 0.879 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs Murlet(seed) Matthews Correlation Coefficient Afold: 0.408 Murlet(seed): 0.110 Sensitivity Afold: 0.343 Murlet(seed): 0.015 Positive Predictive Value Afold: 0.487 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs Murlet(seed) Matthews Correlation Coefficient Carnac(20): 0.401 Murlet(seed): 0.110 Sensitivity Carnac(20): 0.180 Murlet(seed): 0.015 Positive Predictive Value Carnac(20): 0.892 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs Murlet(seed) Matthews Correlation Coefficient McQFold: 0.389 Murlet(seed): 0.110 Sensitivity McQFold: 0.308 Murlet(seed): 0.015 Positive Predictive Value McQFold: 0.492 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs Murlet(seed) Matthews Correlation Coefficient RSpredict(20): 0.377 Murlet(seed): 0.110 Sensitivity RSpredict(20): 0.241 Murlet(seed): 0.015 Positive Predictive Value RSpredict(20): 0.590 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs Murlet(seed) Matthews Correlation Coefficient RNAshapes: 0.367 Murlet(seed): 0.110 Sensitivity RNAshapes: 0.285 Murlet(seed): 0.015 Positive Predictive Value RNAshapes: 0.474 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs Murlet(seed) Matthews Correlation Coefficient RNASLOpt: 0.364 Murlet(seed): 0.110 Sensitivity RNASLOpt: 0.261 Murlet(seed): 0.015 Positive Predictive Value RNASLOpt: 0.510 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs Murlet(seed) Matthews Correlation Coefficient Multilign(20): 0.350 Murlet(seed): 0.110 Sensitivity Multilign(20): 0.161 Murlet(seed): 0.015 Positive Predictive Value Multilign(20): 0.762 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs Murlet(seed) Matthews Correlation Coefficient Murlet(20): 0.321 Murlet(seed): 0.110 Sensitivity Murlet(20): 0.131 Murlet(seed): 0.015 Positive Predictive Value Murlet(20): 0.787 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs Murlet(seed) Matthews Correlation Coefficient RNAwolf: 0.310 Murlet(seed): 0.110 Sensitivity RNAwolf: 0.261 Murlet(seed): 0.015 Positive Predictive Value RNAwolf: 0.369 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs Murlet(seed) Matthews Correlation Coefficient RSpredict(seed): 0.295 Murlet(seed): 0.110 Sensitivity RSpredict(seed): 0.146 Murlet(seed): 0.015 Positive Predictive Value RSpredict(seed): 0.597 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs Murlet(seed) Matthews Correlation Coefficient CMfinder(20): 0.292 Murlet(seed): 0.110 Sensitivity CMfinder(20): 0.107 Murlet(seed): 0.015 Positive Predictive Value CMfinder(20): 0.794 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold4 vs Murlet(seed) Matthews Correlation Coefficient Vsfold4: 0.270 Murlet(seed): 0.110 Sensitivity Vsfold4: 0.198 Murlet(seed): 0.015 Positive Predictive Value Vsfold4: 0.371 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold5 vs Murlet(seed) Matthews Correlation Coefficient Vsfold5: 0.260 Murlet(seed): 0.110 Sensitivity Vsfold5: 0.195 Murlet(seed): 0.015 Positive Predictive Value Vsfold5: 0.347 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(20) vs Murlet(seed) Matthews Correlation Coefficient RNASampler(20): 0.246 Murlet(seed): 0.110 Sensitivity RNASampler(20): 0.069 Murlet(seed): 0.015 Positive Predictive Value RNASampler(20): 0.877 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 HotKnots vs Murlet(seed) Matthews Correlation Coefficient HotKnots: 0.212 Murlet(seed): 0.110 Sensitivity HotKnots: 0.069 Murlet(seed): 0.015 Positive Predictive Value HotKnots: 0.659 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Mastr(20) vs Murlet(seed) Matthews Correlation Coefficient Mastr(20): 0.187 Murlet(seed): 0.110 Sensitivity Mastr(20): 0.044 Murlet(seed): 0.015 Positive Predictive Value Mastr(20): 0.790 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Cylofold vs Murlet(seed) Matthews Correlation Coefficient Cylofold: 0.178 Murlet(seed): 0.110 Sensitivity Cylofold: 0.053 Murlet(seed): 0.015 Positive Predictive Value Cylofold: 0.597 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Pknots vs Murlet(seed) Matthews Correlation Coefficient Pknots: 0.165 Murlet(seed): 0.110 Sensitivity Pknots: 0.041 Murlet(seed): 0.015 Positive Predictive Value Pknots: 0.662 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Alterna vs Murlet(seed) Matthews Correlation Coefficient Alterna: 0.145 Murlet(seed): 0.110 Sensitivity Alterna: 0.036 Murlet(seed): 0.015 Positive Predictive Value Alterna: 0.582 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MCFold vs Murlet(seed) Matthews Correlation Coefficient MCFold: 0.138 Murlet(seed): 0.110 Sensitivity MCFold: 0.044 Murlet(seed): 0.015 Positive Predictive Value MCFold: 0.432 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RDfolder vs Murlet(seed) Matthews Correlation Coefficient RDfolder: 0.138 Murlet(seed): 0.110 Sensitivity RDfolder: 0.031 Murlet(seed): 0.015 Positive Predictive Value RDfolder: 0.615 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		= CMfinder(seed) vs Murlet(seed) Matthews Correlation Coefficient CMfinder(seed): 0.111 Murlet(seed): 0.110 Sensitivity CMfinder(seed): 0.016 Murlet(seed): 0.015 Positive Predictive Value CMfinder(seed): 0.757 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 0.253241979086	+ Murlet(seed) vs TurboFold(seed) Matthews Correlation Coefficient Murlet(seed): 0.110 TurboFold(seed): 0.106 Sensitivity Murlet(seed): 0.015 TurboFold(seed): 0.014 Positive Predictive Value Murlet(seed): 0.811 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 1.50402730567e-05	+ Murlet(seed) vs PPfold(seed) Matthews Correlation Coefficient Murlet(seed): 0.110 PPfold(seed): 0.097 Sensitivity Murlet(seed): 0.015 PPfold(seed): 0.012 Positive Predictive Value Murlet(seed): 0.811 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(seed) vs Carnac(seed) Matthews Correlation Coefficient Murlet(seed): 0.110 Carnac(seed): 0.093 Sensitivity Murlet(seed): 0.015 Carnac(seed): 0.010 Positive Predictive Value Murlet(seed): 0.811 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(seed) vs RNASampler(seed) Matthews Correlation Coefficient Murlet(seed): 0.110 RNASampler(seed): 0.088 Sensitivity Murlet(seed): 0.015 RNASampler(seed): 0.009 Positive Predictive Value Murlet(seed): 0.811 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(seed) vs Mastr(seed) Matthews Correlation Coefficient Murlet(seed): 0.110 Mastr(seed): 0.072 Sensitivity Murlet(seed): 0.015 Mastr(seed): 0.006 Positive Predictive Value Murlet(seed): 0.811 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(seed) vs NanoFolder Matthews Correlation Coefficient Murlet(seed): 0.110 NanoFolder: 0.068 Sensitivity Murlet(seed): 0.015 NanoFolder: 0.027 Positive Predictive Value Murlet(seed): 0.811 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Murlet(seed) vs Multilign(seed) Matthews Correlation Coefficient Murlet(seed): 0.110 Multilign(seed): 0.059 Sensitivity Murlet(seed): 0.015 Multilign(seed): 0.005 Positive Predictive Value Murlet(seed): 0.811 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
CMfinder(seed)	1242 ContextFold vs CMfinder(seed) Matthews Correlation Coefficient ContextFold: 0.754 CMfinder(seed): 0.111 Sensitivity ContextFold: 0.717 CMfinder(seed): 0.016 Positive Predictive Value ContextFold: 0.794 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs CMfinder(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 CMfinder(seed): 0.111 Sensitivity PETfold_pre2.0(seed): 0.667 CMfinder(seed): 0.016 Positive Predictive Value PETfold_pre2.0(seed): 0.814 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs CMfinder(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 CMfinder(seed): 0.111 Sensitivity CentroidAlifold(seed): 0.414 CMfinder(seed): 0.016 Positive Predictive Value CentroidAlifold(seed): 0.901 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs CMfinder(seed) Matthews Correlation Coefficient IPknot: 0.607 CMfinder(seed): 0.111 Sensitivity IPknot: 0.551 CMfinder(seed): 0.016 Positive Predictive Value IPknot: 0.670 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs CMfinder(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 CMfinder(seed): 0.111 Sensitivity PETfold_pre2.0(20): 0.410 CMfinder(seed): 0.016 Positive Predictive Value PETfold_pre2.0(20): 0.807 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs CMfinder(seed) Matthews Correlation Coefficient CentroidFold: 0.571 CMfinder(seed): 0.111 Sensitivity CentroidFold: 0.515 CMfinder(seed): 0.016 Positive Predictive Value CentroidFold: 0.633 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs CMfinder(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 CMfinder(seed): 0.111 Sensitivity CentroidAlifold(20): 0.369 CMfinder(seed): 0.016 Positive Predictive Value CentroidAlifold(20): 0.891 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs CMfinder(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 CMfinder(seed): 0.111 Sensitivity CentroidHomfold‑LAST: 0.359 CMfinder(seed): 0.016 Positive Predictive Value CentroidHomfold‑LAST: 0.874 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs CMfinder(seed) Matthews Correlation Coefficient Contrafold: 0.556 CMfinder(seed): 0.111 Sensitivity Contrafold: 0.542 CMfinder(seed): 0.016 Positive Predictive Value Contrafold: 0.571 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs CMfinder(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 CMfinder(seed): 0.111 Sensitivity MXScarna(seed): 0.382 CMfinder(seed): 0.016 Positive Predictive Value MXScarna(seed): 0.753 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs CMfinder(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 CMfinder(seed): 0.111 Sensitivity RNAalifold(20): 0.359 CMfinder(seed): 0.016 Positive Predictive Value RNAalifold(20): 0.787 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs CMfinder(seed) Matthews Correlation Coefficient Sfold: 0.527 CMfinder(seed): 0.111 Sensitivity Sfold: 0.477 CMfinder(seed): 0.016 Positive Predictive Value Sfold: 0.582 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs CMfinder(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.523 CMfinder(seed): 0.111 Sensitivity RNAalifold(seed): 0.328 CMfinder(seed): 0.016 Positive Predictive Value RNAalifold(seed): 0.835 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs CMfinder(seed) Matthews Correlation Coefficient MaxExpect: 0.516 CMfinder(seed): 0.111 Sensitivity MaxExpect: 0.505 CMfinder(seed): 0.016 Positive Predictive Value MaxExpect: 0.528 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs CMfinder(seed) Matthews Correlation Coefficient ProbKnot: 0.512 CMfinder(seed): 0.111 Sensitivity ProbKnot: 0.508 CMfinder(seed): 0.016 Positive Predictive Value ProbKnot: 0.517 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs CMfinder(seed) Matthews Correlation Coefficient MXScarna(20): 0.500 CMfinder(seed): 0.111 Sensitivity MXScarna(20): 0.353 CMfinder(seed): 0.016 Positive Predictive Value MXScarna(20): 0.710 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs CMfinder(seed) Matthews Correlation Coefficient UNAFold: 0.494 CMfinder(seed): 0.111 Sensitivity UNAFold: 0.491 CMfinder(seed): 0.016 Positive Predictive Value UNAFold: 0.498 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs CMfinder(seed) Matthews Correlation Coefficient Fold: 0.493 CMfinder(seed): 0.111 Sensitivity Fold: 0.496 CMfinder(seed): 0.016 Positive Predictive Value Fold: 0.490 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs CMfinder(seed) Matthews Correlation Coefficient RNAfold: 0.485 CMfinder(seed): 0.111 Sensitivity RNAfold: 0.486 CMfinder(seed): 0.016 Positive Predictive Value RNAfold: 0.485 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs CMfinder(seed) Matthews Correlation Coefficient PknotsRG: 0.474 CMfinder(seed): 0.111 Sensitivity PknotsRG: 0.440 CMfinder(seed): 0.016 Positive Predictive Value PknotsRG: 0.510 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs CMfinder(seed) Matthews Correlation Coefficient CRWrnafold: 0.430 CMfinder(seed): 0.111 Sensitivity CRWrnafold: 0.379 CMfinder(seed): 0.016 Positive Predictive Value CRWrnafold: 0.490 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs CMfinder(seed) Matthews Correlation Coefficient RNAsubopt: 0.422 CMfinder(seed): 0.111 Sensitivity RNAsubopt: 0.344 CMfinder(seed): 0.016 Positive Predictive Value RNAsubopt: 0.519 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs CMfinder(seed) Matthews Correlation Coefficient TurboFold(20): 0.419 CMfinder(seed): 0.111 Sensitivity TurboFold(20): 0.210 CMfinder(seed): 0.016 Positive Predictive Value TurboFold(20): 0.837 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs CMfinder(seed) Matthews Correlation Coefficient PPfold(20): 0.416 CMfinder(seed): 0.111 Sensitivity PPfold(20): 0.197 CMfinder(seed): 0.016 Positive Predictive Value PPfold(20): 0.879 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs CMfinder(seed) Matthews Correlation Coefficient Afold: 0.408 CMfinder(seed): 0.111 Sensitivity Afold: 0.343 CMfinder(seed): 0.016 Positive Predictive Value Afold: 0.487 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs CMfinder(seed) Matthews Correlation Coefficient Carnac(20): 0.401 CMfinder(seed): 0.111 Sensitivity Carnac(20): 0.180 CMfinder(seed): 0.016 Positive Predictive Value Carnac(20): 0.892 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs CMfinder(seed) Matthews Correlation Coefficient McQFold: 0.389 CMfinder(seed): 0.111 Sensitivity McQFold: 0.308 CMfinder(seed): 0.016 Positive Predictive Value McQFold: 0.492 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs CMfinder(seed) Matthews Correlation Coefficient RSpredict(20): 0.377 CMfinder(seed): 0.111 Sensitivity RSpredict(20): 0.241 CMfinder(seed): 0.016 Positive Predictive Value RSpredict(20): 0.590 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs CMfinder(seed) Matthews Correlation Coefficient RNAshapes: 0.367 CMfinder(seed): 0.111 Sensitivity RNAshapes: 0.285 CMfinder(seed): 0.016 Positive Predictive Value RNAshapes: 0.474 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs CMfinder(seed) Matthews Correlation Coefficient RNASLOpt: 0.364 CMfinder(seed): 0.111 Sensitivity RNASLOpt: 0.261 CMfinder(seed): 0.016 Positive Predictive Value RNASLOpt: 0.510 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs CMfinder(seed) Matthews Correlation Coefficient Multilign(20): 0.350 CMfinder(seed): 0.111 Sensitivity Multilign(20): 0.161 CMfinder(seed): 0.016 Positive Predictive Value Multilign(20): 0.762 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs CMfinder(seed) Matthews Correlation Coefficient Murlet(20): 0.321 CMfinder(seed): 0.111 Sensitivity Murlet(20): 0.131 CMfinder(seed): 0.016 Positive Predictive Value Murlet(20): 0.787 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs CMfinder(seed) Matthews Correlation Coefficient RNAwolf: 0.310 CMfinder(seed): 0.111 Sensitivity RNAwolf: 0.261 CMfinder(seed): 0.016 Positive Predictive Value RNAwolf: 0.369 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs CMfinder(seed) Matthews Correlation Coefficient RSpredict(seed): 0.295 CMfinder(seed): 0.111 Sensitivity RSpredict(seed): 0.146 CMfinder(seed): 0.016 Positive Predictive Value RSpredict(seed): 0.597 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs CMfinder(seed) Matthews Correlation Coefficient CMfinder(20): 0.292 CMfinder(seed): 0.111 Sensitivity CMfinder(20): 0.107 CMfinder(seed): 0.016 Positive Predictive Value CMfinder(20): 0.794 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold4 vs CMfinder(seed) Matthews Correlation Coefficient Vsfold4: 0.270 CMfinder(seed): 0.111 Sensitivity Vsfold4: 0.198 CMfinder(seed): 0.016 Positive Predictive Value Vsfold4: 0.371 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold5 vs CMfinder(seed) Matthews Correlation Coefficient Vsfold5: 0.260 CMfinder(seed): 0.111 Sensitivity Vsfold5: 0.195 CMfinder(seed): 0.016 Positive Predictive Value Vsfold5: 0.347 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(20) vs CMfinder(seed) Matthews Correlation Coefficient RNASampler(20): 0.246 CMfinder(seed): 0.111 Sensitivity RNASampler(20): 0.069 CMfinder(seed): 0.016 Positive Predictive Value RNASampler(20): 0.877 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 HotKnots vs CMfinder(seed) Matthews Correlation Coefficient HotKnots: 0.212 CMfinder(seed): 0.111 Sensitivity HotKnots: 0.069 CMfinder(seed): 0.016 Positive Predictive Value HotKnots: 0.659 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Mastr(20) vs CMfinder(seed) Matthews Correlation Coefficient Mastr(20): 0.187 CMfinder(seed): 0.111 Sensitivity Mastr(20): 0.044 CMfinder(seed): 0.016 Positive Predictive Value Mastr(20): 0.790 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Cylofold vs CMfinder(seed) Matthews Correlation Coefficient Cylofold: 0.178 CMfinder(seed): 0.111 Sensitivity Cylofold: 0.053 CMfinder(seed): 0.016 Positive Predictive Value Cylofold: 0.597 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Pknots vs CMfinder(seed) Matthews Correlation Coefficient Pknots: 0.165 CMfinder(seed): 0.111 Sensitivity Pknots: 0.041 CMfinder(seed): 0.016 Positive Predictive Value Pknots: 0.662 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Alterna vs CMfinder(seed) Matthews Correlation Coefficient Alterna: 0.145 CMfinder(seed): 0.111 Sensitivity Alterna: 0.036 CMfinder(seed): 0.016 Positive Predictive Value Alterna: 0.582 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MCFold vs CMfinder(seed) Matthews Correlation Coefficient MCFold: 0.138 CMfinder(seed): 0.111 Sensitivity MCFold: 0.044 CMfinder(seed): 0.016 Positive Predictive Value MCFold: 0.432 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RDfolder vs CMfinder(seed) Matthews Correlation Coefficient RDfolder: 0.138 CMfinder(seed): 0.111 Sensitivity RDfolder: 0.031 CMfinder(seed): 0.016 Positive Predictive Value RDfolder: 0.615 CMfinder(seed): 0.757 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(seed) vs Murlet(seed) Matthews Correlation Coefficient CMfinder(seed): 0.111 Murlet(seed): 0.110 Sensitivity CMfinder(seed): 0.016 Murlet(seed): 0.015 Positive Predictive Value CMfinder(seed): 0.757 Murlet(seed): 0.811 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 0.253241979086		+ CMfinder(seed) vs TurboFold(seed) Matthews Correlation Coefficient CMfinder(seed): 0.111 TurboFold(seed): 0.106 Sensitivity CMfinder(seed): 0.016 TurboFold(seed): 0.014 Positive Predictive Value CMfinder(seed): 0.757 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 8.81311508309e-08	+ CMfinder(seed) vs PPfold(seed) Matthews Correlation Coefficient CMfinder(seed): 0.111 PPfold(seed): 0.097 Sensitivity CMfinder(seed): 0.016 PPfold(seed): 0.012 Positive Predictive Value CMfinder(seed): 0.757 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(seed) vs Carnac(seed) Matthews Correlation Coefficient CMfinder(seed): 0.111 Carnac(seed): 0.093 Sensitivity CMfinder(seed): 0.016 Carnac(seed): 0.010 Positive Predictive Value CMfinder(seed): 0.757 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(seed) vs RNASampler(seed) Matthews Correlation Coefficient CMfinder(seed): 0.111 RNASampler(seed): 0.088 Sensitivity CMfinder(seed): 0.016 RNASampler(seed): 0.009 Positive Predictive Value CMfinder(seed): 0.757 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(seed) vs Mastr(seed) Matthews Correlation Coefficient CMfinder(seed): 0.111 Mastr(seed): 0.072 Sensitivity CMfinder(seed): 0.016 Mastr(seed): 0.006 Positive Predictive Value CMfinder(seed): 0.757 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(seed) vs NanoFolder Matthews Correlation Coefficient CMfinder(seed): 0.111 NanoFolder: 0.068 Sensitivity CMfinder(seed): 0.016 NanoFolder: 0.027 Positive Predictive Value CMfinder(seed): 0.757 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ CMfinder(seed) vs Multilign(seed) Matthews Correlation Coefficient CMfinder(seed): 0.111 Multilign(seed): 0.059 Sensitivity CMfinder(seed): 0.016 Multilign(seed): 0.005 Positive Predictive Value CMfinder(seed): 0.757 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
TurboFold(seed)	1242 ContextFold vs TurboFold(seed) Matthews Correlation Coefficient ContextFold: 0.754 TurboFold(seed): 0.106 Sensitivity ContextFold: 0.717 TurboFold(seed): 0.014 Positive Predictive Value ContextFold: 0.794 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs TurboFold(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 TurboFold(seed): 0.106 Sensitivity PETfold_pre2.0(seed): 0.667 TurboFold(seed): 0.014 Positive Predictive Value PETfold_pre2.0(seed): 0.814 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs TurboFold(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 TurboFold(seed): 0.106 Sensitivity CentroidAlifold(seed): 0.414 TurboFold(seed): 0.014 Positive Predictive Value CentroidAlifold(seed): 0.901 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs TurboFold(seed) Matthews Correlation Coefficient IPknot: 0.607 TurboFold(seed): 0.106 Sensitivity IPknot: 0.551 TurboFold(seed): 0.014 Positive Predictive Value IPknot: 0.670 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs TurboFold(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 TurboFold(seed): 0.106 Sensitivity PETfold_pre2.0(20): 0.410 TurboFold(seed): 0.014 Positive Predictive Value PETfold_pre2.0(20): 0.807 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs TurboFold(seed) Matthews Correlation Coefficient CentroidFold: 0.571 TurboFold(seed): 0.106 Sensitivity CentroidFold: 0.515 TurboFold(seed): 0.014 Positive Predictive Value CentroidFold: 0.633 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs TurboFold(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 TurboFold(seed): 0.106 Sensitivity CentroidAlifold(20): 0.369 TurboFold(seed): 0.014 Positive Predictive Value CentroidAlifold(20): 0.891 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs TurboFold(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 TurboFold(seed): 0.106 Sensitivity CentroidHomfold‑LAST: 0.359 TurboFold(seed): 0.014 Positive Predictive Value CentroidHomfold‑LAST: 0.874 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs TurboFold(seed) Matthews Correlation Coefficient Contrafold: 0.556 TurboFold(seed): 0.106 Sensitivity Contrafold: 0.542 TurboFold(seed): 0.014 Positive Predictive Value Contrafold: 0.571 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs TurboFold(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 TurboFold(seed): 0.106 Sensitivity MXScarna(seed): 0.382 TurboFold(seed): 0.014 Positive Predictive Value MXScarna(seed): 0.753 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs TurboFold(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 TurboFold(seed): 0.106 Sensitivity RNAalifold(20): 0.359 TurboFold(seed): 0.014 Positive Predictive Value RNAalifold(20): 0.787 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs TurboFold(seed) Matthews Correlation Coefficient Sfold: 0.527 TurboFold(seed): 0.106 Sensitivity Sfold: 0.477 TurboFold(seed): 0.014 Positive Predictive Value Sfold: 0.582 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs TurboFold(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.523 TurboFold(seed): 0.106 Sensitivity RNAalifold(seed): 0.328 TurboFold(seed): 0.014 Positive Predictive Value RNAalifold(seed): 0.835 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs TurboFold(seed) Matthews Correlation Coefficient MaxExpect: 0.516 TurboFold(seed): 0.106 Sensitivity MaxExpect: 0.505 TurboFold(seed): 0.014 Positive Predictive Value MaxExpect: 0.528 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs TurboFold(seed) Matthews Correlation Coefficient ProbKnot: 0.512 TurboFold(seed): 0.106 Sensitivity ProbKnot: 0.508 TurboFold(seed): 0.014 Positive Predictive Value ProbKnot: 0.517 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs TurboFold(seed) Matthews Correlation Coefficient MXScarna(20): 0.500 TurboFold(seed): 0.106 Sensitivity MXScarna(20): 0.353 TurboFold(seed): 0.014 Positive Predictive Value MXScarna(20): 0.710 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs TurboFold(seed) Matthews Correlation Coefficient UNAFold: 0.494 TurboFold(seed): 0.106 Sensitivity UNAFold: 0.491 TurboFold(seed): 0.014 Positive Predictive Value UNAFold: 0.498 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs TurboFold(seed) Matthews Correlation Coefficient Fold: 0.493 TurboFold(seed): 0.106 Sensitivity Fold: 0.496 TurboFold(seed): 0.014 Positive Predictive Value Fold: 0.490 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs TurboFold(seed) Matthews Correlation Coefficient RNAfold: 0.485 TurboFold(seed): 0.106 Sensitivity RNAfold: 0.486 TurboFold(seed): 0.014 Positive Predictive Value RNAfold: 0.485 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs TurboFold(seed) Matthews Correlation Coefficient PknotsRG: 0.474 TurboFold(seed): 0.106 Sensitivity PknotsRG: 0.440 TurboFold(seed): 0.014 Positive Predictive Value PknotsRG: 0.510 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs TurboFold(seed) Matthews Correlation Coefficient CRWrnafold: 0.430 TurboFold(seed): 0.106 Sensitivity CRWrnafold: 0.379 TurboFold(seed): 0.014 Positive Predictive Value CRWrnafold: 0.490 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs TurboFold(seed) Matthews Correlation Coefficient RNAsubopt: 0.422 TurboFold(seed): 0.106 Sensitivity RNAsubopt: 0.344 TurboFold(seed): 0.014 Positive Predictive Value RNAsubopt: 0.519 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs TurboFold(seed) Matthews Correlation Coefficient TurboFold(20): 0.419 TurboFold(seed): 0.106 Sensitivity TurboFold(20): 0.210 TurboFold(seed): 0.014 Positive Predictive Value TurboFold(20): 0.837 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs TurboFold(seed) Matthews Correlation Coefficient PPfold(20): 0.416 TurboFold(seed): 0.106 Sensitivity PPfold(20): 0.197 TurboFold(seed): 0.014 Positive Predictive Value PPfold(20): 0.879 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs TurboFold(seed) Matthews Correlation Coefficient Afold: 0.408 TurboFold(seed): 0.106 Sensitivity Afold: 0.343 TurboFold(seed): 0.014 Positive Predictive Value Afold: 0.487 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs TurboFold(seed) Matthews Correlation Coefficient Carnac(20): 0.401 TurboFold(seed): 0.106 Sensitivity Carnac(20): 0.180 TurboFold(seed): 0.014 Positive Predictive Value Carnac(20): 0.892 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs TurboFold(seed) Matthews Correlation Coefficient McQFold: 0.389 TurboFold(seed): 0.106 Sensitivity McQFold: 0.308 TurboFold(seed): 0.014 Positive Predictive Value McQFold: 0.492 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs TurboFold(seed) Matthews Correlation Coefficient RSpredict(20): 0.377 TurboFold(seed): 0.106 Sensitivity RSpredict(20): 0.241 TurboFold(seed): 0.014 Positive Predictive Value RSpredict(20): 0.590 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs TurboFold(seed) Matthews Correlation Coefficient RNAshapes: 0.367 TurboFold(seed): 0.106 Sensitivity RNAshapes: 0.285 TurboFold(seed): 0.014 Positive Predictive Value RNAshapes: 0.474 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs TurboFold(seed) Matthews Correlation Coefficient RNASLOpt: 0.364 TurboFold(seed): 0.106 Sensitivity RNASLOpt: 0.261 TurboFold(seed): 0.014 Positive Predictive Value RNASLOpt: 0.510 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs TurboFold(seed) Matthews Correlation Coefficient Multilign(20): 0.350 TurboFold(seed): 0.106 Sensitivity Multilign(20): 0.161 TurboFold(seed): 0.014 Positive Predictive Value Multilign(20): 0.762 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs TurboFold(seed) Matthews Correlation Coefficient Murlet(20): 0.321 TurboFold(seed): 0.106 Sensitivity Murlet(20): 0.131 TurboFold(seed): 0.014 Positive Predictive Value Murlet(20): 0.787 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs TurboFold(seed) Matthews Correlation Coefficient RNAwolf: 0.310 TurboFold(seed): 0.106 Sensitivity RNAwolf: 0.261 TurboFold(seed): 0.014 Positive Predictive Value RNAwolf: 0.369 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs TurboFold(seed) Matthews Correlation Coefficient RSpredict(seed): 0.295 TurboFold(seed): 0.106 Sensitivity RSpredict(seed): 0.146 TurboFold(seed): 0.014 Positive Predictive Value RSpredict(seed): 0.597 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs TurboFold(seed) Matthews Correlation Coefficient CMfinder(20): 0.292 TurboFold(seed): 0.106 Sensitivity CMfinder(20): 0.107 TurboFold(seed): 0.014 Positive Predictive Value CMfinder(20): 0.794 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold4 vs TurboFold(seed) Matthews Correlation Coefficient Vsfold4: 0.270 TurboFold(seed): 0.106 Sensitivity Vsfold4: 0.198 TurboFold(seed): 0.014 Positive Predictive Value Vsfold4: 0.371 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold5 vs TurboFold(seed) Matthews Correlation Coefficient Vsfold5: 0.260 TurboFold(seed): 0.106 Sensitivity Vsfold5: 0.195 TurboFold(seed): 0.014 Positive Predictive Value Vsfold5: 0.347 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(20) vs TurboFold(seed) Matthews Correlation Coefficient RNASampler(20): 0.246 TurboFold(seed): 0.106 Sensitivity RNASampler(20): 0.069 TurboFold(seed): 0.014 Positive Predictive Value RNASampler(20): 0.877 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 HotKnots vs TurboFold(seed) Matthews Correlation Coefficient HotKnots: 0.212 TurboFold(seed): 0.106 Sensitivity HotKnots: 0.069 TurboFold(seed): 0.014 Positive Predictive Value HotKnots: 0.659 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Mastr(20) vs TurboFold(seed) Matthews Correlation Coefficient Mastr(20): 0.187 TurboFold(seed): 0.106 Sensitivity Mastr(20): 0.044 TurboFold(seed): 0.014 Positive Predictive Value Mastr(20): 0.790 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Cylofold vs TurboFold(seed) Matthews Correlation Coefficient Cylofold: 0.178 TurboFold(seed): 0.106 Sensitivity Cylofold: 0.053 TurboFold(seed): 0.014 Positive Predictive Value Cylofold: 0.597 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Pknots vs TurboFold(seed) Matthews Correlation Coefficient Pknots: 0.165 TurboFold(seed): 0.106 Sensitivity Pknots: 0.041 TurboFold(seed): 0.014 Positive Predictive Value Pknots: 0.662 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Alterna vs TurboFold(seed) Matthews Correlation Coefficient Alterna: 0.145 TurboFold(seed): 0.106 Sensitivity Alterna: 0.036 TurboFold(seed): 0.014 Positive Predictive Value Alterna: 0.582 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MCFold vs TurboFold(seed) Matthews Correlation Coefficient MCFold: 0.138 TurboFold(seed): 0.106 Sensitivity MCFold: 0.044 TurboFold(seed): 0.014 Positive Predictive Value MCFold: 0.432 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RDfolder vs TurboFold(seed) Matthews Correlation Coefficient RDfolder: 0.138 TurboFold(seed): 0.106 Sensitivity RDfolder: 0.031 TurboFold(seed): 0.014 Positive Predictive Value RDfolder: 0.615 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(seed) vs TurboFold(seed) Matthews Correlation Coefficient Murlet(seed): 0.110 TurboFold(seed): 0.106 Sensitivity Murlet(seed): 0.015 TurboFold(seed): 0.014 Positive Predictive Value Murlet(seed): 0.811 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 1.50402730567e-05	1242 CMfinder(seed) vs TurboFold(seed) Matthews Correlation Coefficient CMfinder(seed): 0.111 TurboFold(seed): 0.106 Sensitivity CMfinder(seed): 0.016 TurboFold(seed): 0.014 Positive Predictive Value CMfinder(seed): 0.757 TurboFold(seed): 0.822 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 8.81311508309e-08		+ TurboFold(seed) vs PPfold(seed) Matthews Correlation Coefficient TurboFold(seed): 0.106 PPfold(seed): 0.097 Sensitivity TurboFold(seed): 0.014 PPfold(seed): 0.012 Positive Predictive Value TurboFold(seed): 0.822 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(seed) vs Carnac(seed) Matthews Correlation Coefficient TurboFold(seed): 0.106 Carnac(seed): 0.093 Sensitivity TurboFold(seed): 0.014 Carnac(seed): 0.010 Positive Predictive Value TurboFold(seed): 0.822 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(seed) vs RNASampler(seed) Matthews Correlation Coefficient TurboFold(seed): 0.106 RNASampler(seed): 0.088 Sensitivity TurboFold(seed): 0.014 RNASampler(seed): 0.009 Positive Predictive Value TurboFold(seed): 0.822 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(seed) vs Mastr(seed) Matthews Correlation Coefficient TurboFold(seed): 0.106 Mastr(seed): 0.072 Sensitivity TurboFold(seed): 0.014 Mastr(seed): 0.006 Positive Predictive Value TurboFold(seed): 0.822 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(seed) vs NanoFolder Matthews Correlation Coefficient TurboFold(seed): 0.106 NanoFolder: 0.068 Sensitivity TurboFold(seed): 0.014 NanoFolder: 0.027 Positive Predictive Value TurboFold(seed): 0.822 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ TurboFold(seed) vs Multilign(seed) Matthews Correlation Coefficient TurboFold(seed): 0.106 Multilign(seed): 0.059 Sensitivity TurboFold(seed): 0.014 Multilign(seed): 0.005 Positive Predictive Value TurboFold(seed): 0.822 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
PPfold(seed)	1242 ContextFold vs PPfold(seed) Matthews Correlation Coefficient ContextFold: 0.754 PPfold(seed): 0.097 Sensitivity ContextFold: 0.717 PPfold(seed): 0.012 Positive Predictive Value ContextFold: 0.794 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs PPfold(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 PPfold(seed): 0.097 Sensitivity PETfold_pre2.0(seed): 0.667 PPfold(seed): 0.012 Positive Predictive Value PETfold_pre2.0(seed): 0.814 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs PPfold(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 PPfold(seed): 0.097 Sensitivity CentroidAlifold(seed): 0.414 PPfold(seed): 0.012 Positive Predictive Value CentroidAlifold(seed): 0.901 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs PPfold(seed) Matthews Correlation Coefficient IPknot: 0.607 PPfold(seed): 0.097 Sensitivity IPknot: 0.551 PPfold(seed): 0.012 Positive Predictive Value IPknot: 0.670 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs PPfold(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 PPfold(seed): 0.097 Sensitivity PETfold_pre2.0(20): 0.410 PPfold(seed): 0.012 Positive Predictive Value PETfold_pre2.0(20): 0.807 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs PPfold(seed) Matthews Correlation Coefficient CentroidFold: 0.571 PPfold(seed): 0.097 Sensitivity CentroidFold: 0.515 PPfold(seed): 0.012 Positive Predictive Value CentroidFold: 0.633 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs PPfold(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 PPfold(seed): 0.097 Sensitivity CentroidAlifold(20): 0.369 PPfold(seed): 0.012 Positive Predictive Value CentroidAlifold(20): 0.891 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs PPfold(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 PPfold(seed): 0.097 Sensitivity CentroidHomfold‑LAST: 0.359 PPfold(seed): 0.012 Positive Predictive Value CentroidHomfold‑LAST: 0.874 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs PPfold(seed) Matthews Correlation Coefficient Contrafold: 0.556 PPfold(seed): 0.097 Sensitivity Contrafold: 0.542 PPfold(seed): 0.012 Positive Predictive Value Contrafold: 0.571 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs PPfold(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 PPfold(seed): 0.097 Sensitivity MXScarna(seed): 0.382 PPfold(seed): 0.012 Positive Predictive Value MXScarna(seed): 0.753 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs PPfold(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 PPfold(seed): 0.097 Sensitivity RNAalifold(20): 0.359 PPfold(seed): 0.012 Positive Predictive Value RNAalifold(20): 0.787 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs PPfold(seed) Matthews Correlation Coefficient Sfold: 0.527 PPfold(seed): 0.097 Sensitivity Sfold: 0.477 PPfold(seed): 0.012 Positive Predictive Value Sfold: 0.582 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs PPfold(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.523 PPfold(seed): 0.097 Sensitivity RNAalifold(seed): 0.328 PPfold(seed): 0.012 Positive Predictive Value RNAalifold(seed): 0.835 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs PPfold(seed) Matthews Correlation Coefficient MaxExpect: 0.516 PPfold(seed): 0.097 Sensitivity MaxExpect: 0.505 PPfold(seed): 0.012 Positive Predictive Value MaxExpect: 0.528 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs PPfold(seed) Matthews Correlation Coefficient ProbKnot: 0.512 PPfold(seed): 0.097 Sensitivity ProbKnot: 0.508 PPfold(seed): 0.012 Positive Predictive Value ProbKnot: 0.517 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs PPfold(seed) Matthews Correlation Coefficient MXScarna(20): 0.500 PPfold(seed): 0.097 Sensitivity MXScarna(20): 0.353 PPfold(seed): 0.012 Positive Predictive Value MXScarna(20): 0.710 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs PPfold(seed) Matthews Correlation Coefficient UNAFold: 0.494 PPfold(seed): 0.097 Sensitivity UNAFold: 0.491 PPfold(seed): 0.012 Positive Predictive Value UNAFold: 0.498 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs PPfold(seed) Matthews Correlation Coefficient Fold: 0.493 PPfold(seed): 0.097 Sensitivity Fold: 0.496 PPfold(seed): 0.012 Positive Predictive Value Fold: 0.490 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs PPfold(seed) Matthews Correlation Coefficient RNAfold: 0.485 PPfold(seed): 0.097 Sensitivity RNAfold: 0.486 PPfold(seed): 0.012 Positive Predictive Value RNAfold: 0.485 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs PPfold(seed) Matthews Correlation Coefficient PknotsRG: 0.474 PPfold(seed): 0.097 Sensitivity PknotsRG: 0.440 PPfold(seed): 0.012 Positive Predictive Value PknotsRG: 0.510 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs PPfold(seed) Matthews Correlation Coefficient CRWrnafold: 0.430 PPfold(seed): 0.097 Sensitivity CRWrnafold: 0.379 PPfold(seed): 0.012 Positive Predictive Value CRWrnafold: 0.490 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs PPfold(seed) Matthews Correlation Coefficient RNAsubopt: 0.422 PPfold(seed): 0.097 Sensitivity RNAsubopt: 0.344 PPfold(seed): 0.012 Positive Predictive Value RNAsubopt: 0.519 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs PPfold(seed) Matthews Correlation Coefficient TurboFold(20): 0.419 PPfold(seed): 0.097 Sensitivity TurboFold(20): 0.210 PPfold(seed): 0.012 Positive Predictive Value TurboFold(20): 0.837 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs PPfold(seed) Matthews Correlation Coefficient PPfold(20): 0.416 PPfold(seed): 0.097 Sensitivity PPfold(20): 0.197 PPfold(seed): 0.012 Positive Predictive Value PPfold(20): 0.879 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs PPfold(seed) Matthews Correlation Coefficient Afold: 0.408 PPfold(seed): 0.097 Sensitivity Afold: 0.343 PPfold(seed): 0.012 Positive Predictive Value Afold: 0.487 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs PPfold(seed) Matthews Correlation Coefficient Carnac(20): 0.401 PPfold(seed): 0.097 Sensitivity Carnac(20): 0.180 PPfold(seed): 0.012 Positive Predictive Value Carnac(20): 0.892 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs PPfold(seed) Matthews Correlation Coefficient McQFold: 0.389 PPfold(seed): 0.097 Sensitivity McQFold: 0.308 PPfold(seed): 0.012 Positive Predictive Value McQFold: 0.492 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs PPfold(seed) Matthews Correlation Coefficient RSpredict(20): 0.377 PPfold(seed): 0.097 Sensitivity RSpredict(20): 0.241 PPfold(seed): 0.012 Positive Predictive Value RSpredict(20): 0.590 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs PPfold(seed) Matthews Correlation Coefficient RNAshapes: 0.367 PPfold(seed): 0.097 Sensitivity RNAshapes: 0.285 PPfold(seed): 0.012 Positive Predictive Value RNAshapes: 0.474 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs PPfold(seed) Matthews Correlation Coefficient RNASLOpt: 0.364 PPfold(seed): 0.097 Sensitivity RNASLOpt: 0.261 PPfold(seed): 0.012 Positive Predictive Value RNASLOpt: 0.510 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs PPfold(seed) Matthews Correlation Coefficient Multilign(20): 0.350 PPfold(seed): 0.097 Sensitivity Multilign(20): 0.161 PPfold(seed): 0.012 Positive Predictive Value Multilign(20): 0.762 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs PPfold(seed) Matthews Correlation Coefficient Murlet(20): 0.321 PPfold(seed): 0.097 Sensitivity Murlet(20): 0.131 PPfold(seed): 0.012 Positive Predictive Value Murlet(20): 0.787 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs PPfold(seed) Matthews Correlation Coefficient RNAwolf: 0.310 PPfold(seed): 0.097 Sensitivity RNAwolf: 0.261 PPfold(seed): 0.012 Positive Predictive Value RNAwolf: 0.369 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs PPfold(seed) Matthews Correlation Coefficient RSpredict(seed): 0.295 PPfold(seed): 0.097 Sensitivity RSpredict(seed): 0.146 PPfold(seed): 0.012 Positive Predictive Value RSpredict(seed): 0.597 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs PPfold(seed) Matthews Correlation Coefficient CMfinder(20): 0.292 PPfold(seed): 0.097 Sensitivity CMfinder(20): 0.107 PPfold(seed): 0.012 Positive Predictive Value CMfinder(20): 0.794 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold4 vs PPfold(seed) Matthews Correlation Coefficient Vsfold4: 0.270 PPfold(seed): 0.097 Sensitivity Vsfold4: 0.198 PPfold(seed): 0.012 Positive Predictive Value Vsfold4: 0.371 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold5 vs PPfold(seed) Matthews Correlation Coefficient Vsfold5: 0.260 PPfold(seed): 0.097 Sensitivity Vsfold5: 0.195 PPfold(seed): 0.012 Positive Predictive Value Vsfold5: 0.347 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(20) vs PPfold(seed) Matthews Correlation Coefficient RNASampler(20): 0.246 PPfold(seed): 0.097 Sensitivity RNASampler(20): 0.069 PPfold(seed): 0.012 Positive Predictive Value RNASampler(20): 0.877 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 HotKnots vs PPfold(seed) Matthews Correlation Coefficient HotKnots: 0.212 PPfold(seed): 0.097 Sensitivity HotKnots: 0.069 PPfold(seed): 0.012 Positive Predictive Value HotKnots: 0.659 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Mastr(20) vs PPfold(seed) Matthews Correlation Coefficient Mastr(20): 0.187 PPfold(seed): 0.097 Sensitivity Mastr(20): 0.044 PPfold(seed): 0.012 Positive Predictive Value Mastr(20): 0.790 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Cylofold vs PPfold(seed) Matthews Correlation Coefficient Cylofold: 0.178 PPfold(seed): 0.097 Sensitivity Cylofold: 0.053 PPfold(seed): 0.012 Positive Predictive Value Cylofold: 0.597 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Pknots vs PPfold(seed) Matthews Correlation Coefficient Pknots: 0.165 PPfold(seed): 0.097 Sensitivity Pknots: 0.041 PPfold(seed): 0.012 Positive Predictive Value Pknots: 0.662 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Alterna vs PPfold(seed) Matthews Correlation Coefficient Alterna: 0.145 PPfold(seed): 0.097 Sensitivity Alterna: 0.036 PPfold(seed): 0.012 Positive Predictive Value Alterna: 0.582 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MCFold vs PPfold(seed) Matthews Correlation Coefficient MCFold: 0.138 PPfold(seed): 0.097 Sensitivity MCFold: 0.044 PPfold(seed): 0.012 Positive Predictive Value MCFold: 0.432 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RDfolder vs PPfold(seed) Matthews Correlation Coefficient RDfolder: 0.138 PPfold(seed): 0.097 Sensitivity RDfolder: 0.031 PPfold(seed): 0.012 Positive Predictive Value RDfolder: 0.615 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(seed) vs PPfold(seed) Matthews Correlation Coefficient Murlet(seed): 0.110 PPfold(seed): 0.097 Sensitivity Murlet(seed): 0.015 PPfold(seed): 0.012 Positive Predictive Value Murlet(seed): 0.811 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(seed) vs PPfold(seed) Matthews Correlation Coefficient CMfinder(seed): 0.111 PPfold(seed): 0.097 Sensitivity CMfinder(seed): 0.016 PPfold(seed): 0.012 Positive Predictive Value CMfinder(seed): 0.757 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(seed) vs PPfold(seed) Matthews Correlation Coefficient TurboFold(seed): 0.106 PPfold(seed): 0.097 Sensitivity TurboFold(seed): 0.014 PPfold(seed): 0.012 Positive Predictive Value TurboFold(seed): 0.822 PPfold(seed): 0.794 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ PPfold(seed) vs Carnac(seed) Matthews Correlation Coefficient PPfold(seed): 0.097 Carnac(seed): 0.093 Sensitivity PPfold(seed): 0.012 Carnac(seed): 0.010 Positive Predictive Value PPfold(seed): 0.794 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 6.18847062639e-05	+ PPfold(seed) vs RNASampler(seed) Matthews Correlation Coefficient PPfold(seed): 0.097 RNASampler(seed): 0.088 Sensitivity PPfold(seed): 0.012 RNASampler(seed): 0.009 Positive Predictive Value PPfold(seed): 0.794 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(seed) vs Mastr(seed) Matthews Correlation Coefficient PPfold(seed): 0.097 Mastr(seed): 0.072 Sensitivity PPfold(seed): 0.012 Mastr(seed): 0.006 Positive Predictive Value PPfold(seed): 0.794 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(seed) vs NanoFolder Matthews Correlation Coefficient PPfold(seed): 0.097 NanoFolder: 0.068 Sensitivity PPfold(seed): 0.012 NanoFolder: 0.027 Positive Predictive Value PPfold(seed): 0.794 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ PPfold(seed) vs Multilign(seed) Matthews Correlation Coefficient PPfold(seed): 0.097 Multilign(seed): 0.059 Sensitivity PPfold(seed): 0.012 Multilign(seed): 0.005 Positive Predictive Value PPfold(seed): 0.794 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
Carnac(seed)	1242 ContextFold vs Carnac(seed) Matthews Correlation Coefficient ContextFold: 0.754 Carnac(seed): 0.093 Sensitivity ContextFold: 0.717 Carnac(seed): 0.010 Positive Predictive Value ContextFold: 0.794 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs Carnac(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Carnac(seed): 0.093 Sensitivity PETfold_pre2.0(seed): 0.667 Carnac(seed): 0.010 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs Carnac(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Carnac(seed): 0.093 Sensitivity CentroidAlifold(seed): 0.414 Carnac(seed): 0.010 Positive Predictive Value CentroidAlifold(seed): 0.901 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs Carnac(seed) Matthews Correlation Coefficient IPknot: 0.607 Carnac(seed): 0.093 Sensitivity IPknot: 0.551 Carnac(seed): 0.010 Positive Predictive Value IPknot: 0.670 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs Carnac(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Carnac(seed): 0.093 Sensitivity PETfold_pre2.0(20): 0.410 Carnac(seed): 0.010 Positive Predictive Value PETfold_pre2.0(20): 0.807 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs Carnac(seed) Matthews Correlation Coefficient CentroidFold: 0.571 Carnac(seed): 0.093 Sensitivity CentroidFold: 0.515 Carnac(seed): 0.010 Positive Predictive Value CentroidFold: 0.633 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs Carnac(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Carnac(seed): 0.093 Sensitivity CentroidAlifold(20): 0.369 Carnac(seed): 0.010 Positive Predictive Value CentroidAlifold(20): 0.891 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs Carnac(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Carnac(seed): 0.093 Sensitivity CentroidHomfold‑LAST: 0.359 Carnac(seed): 0.010 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs Carnac(seed) Matthews Correlation Coefficient Contrafold: 0.556 Carnac(seed): 0.093 Sensitivity Contrafold: 0.542 Carnac(seed): 0.010 Positive Predictive Value Contrafold: 0.571 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs Carnac(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 Carnac(seed): 0.093 Sensitivity MXScarna(seed): 0.382 Carnac(seed): 0.010 Positive Predictive Value MXScarna(seed): 0.753 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs Carnac(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 Carnac(seed): 0.093 Sensitivity RNAalifold(20): 0.359 Carnac(seed): 0.010 Positive Predictive Value RNAalifold(20): 0.787 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs Carnac(seed) Matthews Correlation Coefficient Sfold: 0.527 Carnac(seed): 0.093 Sensitivity Sfold: 0.477 Carnac(seed): 0.010 Positive Predictive Value Sfold: 0.582 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs Carnac(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.523 Carnac(seed): 0.093 Sensitivity RNAalifold(seed): 0.328 Carnac(seed): 0.010 Positive Predictive Value RNAalifold(seed): 0.835 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs Carnac(seed) Matthews Correlation Coefficient MaxExpect: 0.516 Carnac(seed): 0.093 Sensitivity MaxExpect: 0.505 Carnac(seed): 0.010 Positive Predictive Value MaxExpect: 0.528 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs Carnac(seed) Matthews Correlation Coefficient ProbKnot: 0.512 Carnac(seed): 0.093 Sensitivity ProbKnot: 0.508 Carnac(seed): 0.010 Positive Predictive Value ProbKnot: 0.517 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs Carnac(seed) Matthews Correlation Coefficient MXScarna(20): 0.500 Carnac(seed): 0.093 Sensitivity MXScarna(20): 0.353 Carnac(seed): 0.010 Positive Predictive Value MXScarna(20): 0.710 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs Carnac(seed) Matthews Correlation Coefficient UNAFold: 0.494 Carnac(seed): 0.093 Sensitivity UNAFold: 0.491 Carnac(seed): 0.010 Positive Predictive Value UNAFold: 0.498 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs Carnac(seed) Matthews Correlation Coefficient Fold: 0.493 Carnac(seed): 0.093 Sensitivity Fold: 0.496 Carnac(seed): 0.010 Positive Predictive Value Fold: 0.490 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs Carnac(seed) Matthews Correlation Coefficient RNAfold: 0.485 Carnac(seed): 0.093 Sensitivity RNAfold: 0.486 Carnac(seed): 0.010 Positive Predictive Value RNAfold: 0.485 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs Carnac(seed) Matthews Correlation Coefficient PknotsRG: 0.474 Carnac(seed): 0.093 Sensitivity PknotsRG: 0.440 Carnac(seed): 0.010 Positive Predictive Value PknotsRG: 0.510 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs Carnac(seed) Matthews Correlation Coefficient CRWrnafold: 0.430 Carnac(seed): 0.093 Sensitivity CRWrnafold: 0.379 Carnac(seed): 0.010 Positive Predictive Value CRWrnafold: 0.490 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs Carnac(seed) Matthews Correlation Coefficient RNAsubopt: 0.422 Carnac(seed): 0.093 Sensitivity RNAsubopt: 0.344 Carnac(seed): 0.010 Positive Predictive Value RNAsubopt: 0.519 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs Carnac(seed) Matthews Correlation Coefficient TurboFold(20): 0.419 Carnac(seed): 0.093 Sensitivity TurboFold(20): 0.210 Carnac(seed): 0.010 Positive Predictive Value TurboFold(20): 0.837 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs Carnac(seed) Matthews Correlation Coefficient PPfold(20): 0.416 Carnac(seed): 0.093 Sensitivity PPfold(20): 0.197 Carnac(seed): 0.010 Positive Predictive Value PPfold(20): 0.879 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs Carnac(seed) Matthews Correlation Coefficient Afold: 0.408 Carnac(seed): 0.093 Sensitivity Afold: 0.343 Carnac(seed): 0.010 Positive Predictive Value Afold: 0.487 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs Carnac(seed) Matthews Correlation Coefficient Carnac(20): 0.401 Carnac(seed): 0.093 Sensitivity Carnac(20): 0.180 Carnac(seed): 0.010 Positive Predictive Value Carnac(20): 0.892 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs Carnac(seed) Matthews Correlation Coefficient McQFold: 0.389 Carnac(seed): 0.093 Sensitivity McQFold: 0.308 Carnac(seed): 0.010 Positive Predictive Value McQFold: 0.492 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs Carnac(seed) Matthews Correlation Coefficient RSpredict(20): 0.377 Carnac(seed): 0.093 Sensitivity RSpredict(20): 0.241 Carnac(seed): 0.010 Positive Predictive Value RSpredict(20): 0.590 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs Carnac(seed) Matthews Correlation Coefficient RNAshapes: 0.367 Carnac(seed): 0.093 Sensitivity RNAshapes: 0.285 Carnac(seed): 0.010 Positive Predictive Value RNAshapes: 0.474 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs Carnac(seed) Matthews Correlation Coefficient RNASLOpt: 0.364 Carnac(seed): 0.093 Sensitivity RNASLOpt: 0.261 Carnac(seed): 0.010 Positive Predictive Value RNASLOpt: 0.510 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs Carnac(seed) Matthews Correlation Coefficient Multilign(20): 0.350 Carnac(seed): 0.093 Sensitivity Multilign(20): 0.161 Carnac(seed): 0.010 Positive Predictive Value Multilign(20): 0.762 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs Carnac(seed) Matthews Correlation Coefficient Murlet(20): 0.321 Carnac(seed): 0.093 Sensitivity Murlet(20): 0.131 Carnac(seed): 0.010 Positive Predictive Value Murlet(20): 0.787 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs Carnac(seed) Matthews Correlation Coefficient RNAwolf: 0.310 Carnac(seed): 0.093 Sensitivity RNAwolf: 0.261 Carnac(seed): 0.010 Positive Predictive Value RNAwolf: 0.369 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs Carnac(seed) Matthews Correlation Coefficient RSpredict(seed): 0.295 Carnac(seed): 0.093 Sensitivity RSpredict(seed): 0.146 Carnac(seed): 0.010 Positive Predictive Value RSpredict(seed): 0.597 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs Carnac(seed) Matthews Correlation Coefficient CMfinder(20): 0.292 Carnac(seed): 0.093 Sensitivity CMfinder(20): 0.107 Carnac(seed): 0.010 Positive Predictive Value CMfinder(20): 0.794 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold4 vs Carnac(seed) Matthews Correlation Coefficient Vsfold4: 0.270 Carnac(seed): 0.093 Sensitivity Vsfold4: 0.198 Carnac(seed): 0.010 Positive Predictive Value Vsfold4: 0.371 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold5 vs Carnac(seed) Matthews Correlation Coefficient Vsfold5: 0.260 Carnac(seed): 0.093 Sensitivity Vsfold5: 0.195 Carnac(seed): 0.010 Positive Predictive Value Vsfold5: 0.347 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(20) vs Carnac(seed) Matthews Correlation Coefficient RNASampler(20): 0.246 Carnac(seed): 0.093 Sensitivity RNASampler(20): 0.069 Carnac(seed): 0.010 Positive Predictive Value RNASampler(20): 0.877 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 HotKnots vs Carnac(seed) Matthews Correlation Coefficient HotKnots: 0.212 Carnac(seed): 0.093 Sensitivity HotKnots: 0.069 Carnac(seed): 0.010 Positive Predictive Value HotKnots: 0.659 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Mastr(20) vs Carnac(seed) Matthews Correlation Coefficient Mastr(20): 0.187 Carnac(seed): 0.093 Sensitivity Mastr(20): 0.044 Carnac(seed): 0.010 Positive Predictive Value Mastr(20): 0.790 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Cylofold vs Carnac(seed) Matthews Correlation Coefficient Cylofold: 0.178 Carnac(seed): 0.093 Sensitivity Cylofold: 0.053 Carnac(seed): 0.010 Positive Predictive Value Cylofold: 0.597 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Pknots vs Carnac(seed) Matthews Correlation Coefficient Pknots: 0.165 Carnac(seed): 0.093 Sensitivity Pknots: 0.041 Carnac(seed): 0.010 Positive Predictive Value Pknots: 0.662 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Alterna vs Carnac(seed) Matthews Correlation Coefficient Alterna: 0.145 Carnac(seed): 0.093 Sensitivity Alterna: 0.036 Carnac(seed): 0.010 Positive Predictive Value Alterna: 0.582 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MCFold vs Carnac(seed) Matthews Correlation Coefficient MCFold: 0.138 Carnac(seed): 0.093 Sensitivity MCFold: 0.044 Carnac(seed): 0.010 Positive Predictive Value MCFold: 0.432 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RDfolder vs Carnac(seed) Matthews Correlation Coefficient RDfolder: 0.138 Carnac(seed): 0.093 Sensitivity RDfolder: 0.031 Carnac(seed): 0.010 Positive Predictive Value RDfolder: 0.615 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(seed) vs Carnac(seed) Matthews Correlation Coefficient Murlet(seed): 0.110 Carnac(seed): 0.093 Sensitivity Murlet(seed): 0.015 Carnac(seed): 0.010 Positive Predictive Value Murlet(seed): 0.811 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(seed) vs Carnac(seed) Matthews Correlation Coefficient CMfinder(seed): 0.111 Carnac(seed): 0.093 Sensitivity CMfinder(seed): 0.016 Carnac(seed): 0.010 Positive Predictive Value CMfinder(seed): 0.757 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(seed) vs Carnac(seed) Matthews Correlation Coefficient TurboFold(seed): 0.106 Carnac(seed): 0.093 Sensitivity TurboFold(seed): 0.014 Carnac(seed): 0.010 Positive Predictive Value TurboFold(seed): 0.822 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(seed) vs Carnac(seed) Matthews Correlation Coefficient PPfold(seed): 0.097 Carnac(seed): 0.093 Sensitivity PPfold(seed): 0.012 Carnac(seed): 0.010 Positive Predictive Value PPfold(seed): 0.794 Carnac(seed): 0.867 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 6.18847062639e-05		+ Carnac(seed) vs RNASampler(seed) Matthews Correlation Coefficient Carnac(seed): 0.093 RNASampler(seed): 0.088 Sensitivity Carnac(seed): 0.010 RNASampler(seed): 0.009 Positive Predictive Value Carnac(seed): 0.867 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 2.45033651981e-07	+ Carnac(seed) vs Mastr(seed) Matthews Correlation Coefficient Carnac(seed): 0.093 Mastr(seed): 0.072 Sensitivity Carnac(seed): 0.010 Mastr(seed): 0.006 Positive Predictive Value Carnac(seed): 0.867 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(seed) vs NanoFolder Matthews Correlation Coefficient Carnac(seed): 0.093 NanoFolder: 0.068 Sensitivity Carnac(seed): 0.010 NanoFolder: 0.027 Positive Predictive Value Carnac(seed): 0.867 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ Carnac(seed) vs Multilign(seed) Matthews Correlation Coefficient Carnac(seed): 0.093 Multilign(seed): 0.059 Sensitivity Carnac(seed): 0.010 Multilign(seed): 0.005 Positive Predictive Value Carnac(seed): 0.867 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
RNASampler(seed)	1242 ContextFold vs RNASampler(seed) Matthews Correlation Coefficient ContextFold: 0.754 RNASampler(seed): 0.088 Sensitivity ContextFold: 0.717 RNASampler(seed): 0.009 Positive Predictive Value ContextFold: 0.794 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs RNASampler(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 RNASampler(seed): 0.088 Sensitivity PETfold_pre2.0(seed): 0.667 RNASampler(seed): 0.009 Positive Predictive Value PETfold_pre2.0(seed): 0.814 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs RNASampler(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 RNASampler(seed): 0.088 Sensitivity CentroidAlifold(seed): 0.414 RNASampler(seed): 0.009 Positive Predictive Value CentroidAlifold(seed): 0.901 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs RNASampler(seed) Matthews Correlation Coefficient IPknot: 0.607 RNASampler(seed): 0.088 Sensitivity IPknot: 0.551 RNASampler(seed): 0.009 Positive Predictive Value IPknot: 0.670 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs RNASampler(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 RNASampler(seed): 0.088 Sensitivity PETfold_pre2.0(20): 0.410 RNASampler(seed): 0.009 Positive Predictive Value PETfold_pre2.0(20): 0.807 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs RNASampler(seed) Matthews Correlation Coefficient CentroidFold: 0.571 RNASampler(seed): 0.088 Sensitivity CentroidFold: 0.515 RNASampler(seed): 0.009 Positive Predictive Value CentroidFold: 0.633 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs RNASampler(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 RNASampler(seed): 0.088 Sensitivity CentroidAlifold(20): 0.369 RNASampler(seed): 0.009 Positive Predictive Value CentroidAlifold(20): 0.891 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs RNASampler(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 RNASampler(seed): 0.088 Sensitivity CentroidHomfold‑LAST: 0.359 RNASampler(seed): 0.009 Positive Predictive Value CentroidHomfold‑LAST: 0.874 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs RNASampler(seed) Matthews Correlation Coefficient Contrafold: 0.556 RNASampler(seed): 0.088 Sensitivity Contrafold: 0.542 RNASampler(seed): 0.009 Positive Predictive Value Contrafold: 0.571 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs RNASampler(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 RNASampler(seed): 0.088 Sensitivity MXScarna(seed): 0.382 RNASampler(seed): 0.009 Positive Predictive Value MXScarna(seed): 0.753 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs RNASampler(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 RNASampler(seed): 0.088 Sensitivity RNAalifold(20): 0.359 RNASampler(seed): 0.009 Positive Predictive Value RNAalifold(20): 0.787 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs RNASampler(seed) Matthews Correlation Coefficient Sfold: 0.527 RNASampler(seed): 0.088 Sensitivity Sfold: 0.477 RNASampler(seed): 0.009 Positive Predictive Value Sfold: 0.582 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs RNASampler(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.523 RNASampler(seed): 0.088 Sensitivity RNAalifold(seed): 0.328 RNASampler(seed): 0.009 Positive Predictive Value RNAalifold(seed): 0.835 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs RNASampler(seed) Matthews Correlation Coefficient MaxExpect: 0.516 RNASampler(seed): 0.088 Sensitivity MaxExpect: 0.505 RNASampler(seed): 0.009 Positive Predictive Value MaxExpect: 0.528 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs RNASampler(seed) Matthews Correlation Coefficient ProbKnot: 0.512 RNASampler(seed): 0.088 Sensitivity ProbKnot: 0.508 RNASampler(seed): 0.009 Positive Predictive Value ProbKnot: 0.517 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs RNASampler(seed) Matthews Correlation Coefficient MXScarna(20): 0.500 RNASampler(seed): 0.088 Sensitivity MXScarna(20): 0.353 RNASampler(seed): 0.009 Positive Predictive Value MXScarna(20): 0.710 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs RNASampler(seed) Matthews Correlation Coefficient UNAFold: 0.494 RNASampler(seed): 0.088 Sensitivity UNAFold: 0.491 RNASampler(seed): 0.009 Positive Predictive Value UNAFold: 0.498 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs RNASampler(seed) Matthews Correlation Coefficient Fold: 0.493 RNASampler(seed): 0.088 Sensitivity Fold: 0.496 RNASampler(seed): 0.009 Positive Predictive Value Fold: 0.490 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs RNASampler(seed) Matthews Correlation Coefficient RNAfold: 0.485 RNASampler(seed): 0.088 Sensitivity RNAfold: 0.486 RNASampler(seed): 0.009 Positive Predictive Value RNAfold: 0.485 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs RNASampler(seed) Matthews Correlation Coefficient PknotsRG: 0.474 RNASampler(seed): 0.088 Sensitivity PknotsRG: 0.440 RNASampler(seed): 0.009 Positive Predictive Value PknotsRG: 0.510 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs RNASampler(seed) Matthews Correlation Coefficient CRWrnafold: 0.430 RNASampler(seed): 0.088 Sensitivity CRWrnafold: 0.379 RNASampler(seed): 0.009 Positive Predictive Value CRWrnafold: 0.490 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs RNASampler(seed) Matthews Correlation Coefficient RNAsubopt: 0.422 RNASampler(seed): 0.088 Sensitivity RNAsubopt: 0.344 RNASampler(seed): 0.009 Positive Predictive Value RNAsubopt: 0.519 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs RNASampler(seed) Matthews Correlation Coefficient TurboFold(20): 0.419 RNASampler(seed): 0.088 Sensitivity TurboFold(20): 0.210 RNASampler(seed): 0.009 Positive Predictive Value TurboFold(20): 0.837 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs RNASampler(seed) Matthews Correlation Coefficient PPfold(20): 0.416 RNASampler(seed): 0.088 Sensitivity PPfold(20): 0.197 RNASampler(seed): 0.009 Positive Predictive Value PPfold(20): 0.879 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs RNASampler(seed) Matthews Correlation Coefficient Afold: 0.408 RNASampler(seed): 0.088 Sensitivity Afold: 0.343 RNASampler(seed): 0.009 Positive Predictive Value Afold: 0.487 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs RNASampler(seed) Matthews Correlation Coefficient Carnac(20): 0.401 RNASampler(seed): 0.088 Sensitivity Carnac(20): 0.180 RNASampler(seed): 0.009 Positive Predictive Value Carnac(20): 0.892 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs RNASampler(seed) Matthews Correlation Coefficient McQFold: 0.389 RNASampler(seed): 0.088 Sensitivity McQFold: 0.308 RNASampler(seed): 0.009 Positive Predictive Value McQFold: 0.492 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs RNASampler(seed) Matthews Correlation Coefficient RSpredict(20): 0.377 RNASampler(seed): 0.088 Sensitivity RSpredict(20): 0.241 RNASampler(seed): 0.009 Positive Predictive Value RSpredict(20): 0.590 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs RNASampler(seed) Matthews Correlation Coefficient RNAshapes: 0.367 RNASampler(seed): 0.088 Sensitivity RNAshapes: 0.285 RNASampler(seed): 0.009 Positive Predictive Value RNAshapes: 0.474 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs RNASampler(seed) Matthews Correlation Coefficient RNASLOpt: 0.364 RNASampler(seed): 0.088 Sensitivity RNASLOpt: 0.261 RNASampler(seed): 0.009 Positive Predictive Value RNASLOpt: 0.510 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs RNASampler(seed) Matthews Correlation Coefficient Multilign(20): 0.350 RNASampler(seed): 0.088 Sensitivity Multilign(20): 0.161 RNASampler(seed): 0.009 Positive Predictive Value Multilign(20): 0.762 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs RNASampler(seed) Matthews Correlation Coefficient Murlet(20): 0.321 RNASampler(seed): 0.088 Sensitivity Murlet(20): 0.131 RNASampler(seed): 0.009 Positive Predictive Value Murlet(20): 0.787 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs RNASampler(seed) Matthews Correlation Coefficient RNAwolf: 0.310 RNASampler(seed): 0.088 Sensitivity RNAwolf: 0.261 RNASampler(seed): 0.009 Positive Predictive Value RNAwolf: 0.369 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs RNASampler(seed) Matthews Correlation Coefficient RSpredict(seed): 0.295 RNASampler(seed): 0.088 Sensitivity RSpredict(seed): 0.146 RNASampler(seed): 0.009 Positive Predictive Value RSpredict(seed): 0.597 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs RNASampler(seed) Matthews Correlation Coefficient CMfinder(20): 0.292 RNASampler(seed): 0.088 Sensitivity CMfinder(20): 0.107 RNASampler(seed): 0.009 Positive Predictive Value CMfinder(20): 0.794 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold4 vs RNASampler(seed) Matthews Correlation Coefficient Vsfold4: 0.270 RNASampler(seed): 0.088 Sensitivity Vsfold4: 0.198 RNASampler(seed): 0.009 Positive Predictive Value Vsfold4: 0.371 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold5 vs RNASampler(seed) Matthews Correlation Coefficient Vsfold5: 0.260 RNASampler(seed): 0.088 Sensitivity Vsfold5: 0.195 RNASampler(seed): 0.009 Positive Predictive Value Vsfold5: 0.347 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(20) vs RNASampler(seed) Matthews Correlation Coefficient RNASampler(20): 0.246 RNASampler(seed): 0.088 Sensitivity RNASampler(20): 0.069 RNASampler(seed): 0.009 Positive Predictive Value RNASampler(20): 0.877 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 HotKnots vs RNASampler(seed) Matthews Correlation Coefficient HotKnots: 0.212 RNASampler(seed): 0.088 Sensitivity HotKnots: 0.069 RNASampler(seed): 0.009 Positive Predictive Value HotKnots: 0.659 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Mastr(20) vs RNASampler(seed) Matthews Correlation Coefficient Mastr(20): 0.187 RNASampler(seed): 0.088 Sensitivity Mastr(20): 0.044 RNASampler(seed): 0.009 Positive Predictive Value Mastr(20): 0.790 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Cylofold vs RNASampler(seed) Matthews Correlation Coefficient Cylofold: 0.178 RNASampler(seed): 0.088 Sensitivity Cylofold: 0.053 RNASampler(seed): 0.009 Positive Predictive Value Cylofold: 0.597 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Pknots vs RNASampler(seed) Matthews Correlation Coefficient Pknots: 0.165 RNASampler(seed): 0.088 Sensitivity Pknots: 0.041 RNASampler(seed): 0.009 Positive Predictive Value Pknots: 0.662 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Alterna vs RNASampler(seed) Matthews Correlation Coefficient Alterna: 0.145 RNASampler(seed): 0.088 Sensitivity Alterna: 0.036 RNASampler(seed): 0.009 Positive Predictive Value Alterna: 0.582 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MCFold vs RNASampler(seed) Matthews Correlation Coefficient MCFold: 0.138 RNASampler(seed): 0.088 Sensitivity MCFold: 0.044 RNASampler(seed): 0.009 Positive Predictive Value MCFold: 0.432 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RDfolder vs RNASampler(seed) Matthews Correlation Coefficient RDfolder: 0.138 RNASampler(seed): 0.088 Sensitivity RDfolder: 0.031 RNASampler(seed): 0.009 Positive Predictive Value RDfolder: 0.615 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(seed) vs RNASampler(seed) Matthews Correlation Coefficient Murlet(seed): 0.110 RNASampler(seed): 0.088 Sensitivity Murlet(seed): 0.015 RNASampler(seed): 0.009 Positive Predictive Value Murlet(seed): 0.811 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(seed) vs RNASampler(seed) Matthews Correlation Coefficient CMfinder(seed): 0.111 RNASampler(seed): 0.088 Sensitivity CMfinder(seed): 0.016 RNASampler(seed): 0.009 Positive Predictive Value CMfinder(seed): 0.757 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(seed) vs RNASampler(seed) Matthews Correlation Coefficient TurboFold(seed): 0.106 RNASampler(seed): 0.088 Sensitivity TurboFold(seed): 0.014 RNASampler(seed): 0.009 Positive Predictive Value TurboFold(seed): 0.822 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(seed) vs RNASampler(seed) Matthews Correlation Coefficient PPfold(seed): 0.097 RNASampler(seed): 0.088 Sensitivity PPfold(seed): 0.012 RNASampler(seed): 0.009 Positive Predictive Value PPfold(seed): 0.794 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(seed) vs RNASampler(seed) Matthews Correlation Coefficient Carnac(seed): 0.093 RNASampler(seed): 0.088 Sensitivity Carnac(seed): 0.010 RNASampler(seed): 0.009 Positive Predictive Value Carnac(seed): 0.867 RNASampler(seed): 0.847 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 2.45033651981e-07		+ RNASampler(seed) vs Mastr(seed) Matthews Correlation Coefficient RNASampler(seed): 0.088 Mastr(seed): 0.072 Sensitivity RNASampler(seed): 0.009 Mastr(seed): 0.006 Positive Predictive Value RNASampler(seed): 0.847 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(seed) vs NanoFolder Matthews Correlation Coefficient RNASampler(seed): 0.088 NanoFolder: 0.068 Sensitivity RNASampler(seed): 0.009 NanoFolder: 0.027 Positive Predictive Value RNASampler(seed): 0.847 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	+ RNASampler(seed) vs Multilign(seed) Matthews Correlation Coefficient RNASampler(seed): 0.088 Multilign(seed): 0.059 Sensitivity RNASampler(seed): 0.009 Multilign(seed): 0.005 Positive Predictive Value RNASampler(seed): 0.847 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
Mastr(seed)	1242 ContextFold vs Mastr(seed) Matthews Correlation Coefficient ContextFold: 0.754 Mastr(seed): 0.072 Sensitivity ContextFold: 0.717 Mastr(seed): 0.006 Positive Predictive Value ContextFold: 0.794 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs Mastr(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Mastr(seed): 0.072 Sensitivity PETfold_pre2.0(seed): 0.667 Mastr(seed): 0.006 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs Mastr(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Mastr(seed): 0.072 Sensitivity CentroidAlifold(seed): 0.414 Mastr(seed): 0.006 Positive Predictive Value CentroidAlifold(seed): 0.901 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs Mastr(seed) Matthews Correlation Coefficient IPknot: 0.607 Mastr(seed): 0.072 Sensitivity IPknot: 0.551 Mastr(seed): 0.006 Positive Predictive Value IPknot: 0.670 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs Mastr(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Mastr(seed): 0.072 Sensitivity PETfold_pre2.0(20): 0.410 Mastr(seed): 0.006 Positive Predictive Value PETfold_pre2.0(20): 0.807 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs Mastr(seed) Matthews Correlation Coefficient CentroidFold: 0.571 Mastr(seed): 0.072 Sensitivity CentroidFold: 0.515 Mastr(seed): 0.006 Positive Predictive Value CentroidFold: 0.633 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs Mastr(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Mastr(seed): 0.072 Sensitivity CentroidAlifold(20): 0.369 Mastr(seed): 0.006 Positive Predictive Value CentroidAlifold(20): 0.891 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs Mastr(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Mastr(seed): 0.072 Sensitivity CentroidHomfold‑LAST: 0.359 Mastr(seed): 0.006 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs Mastr(seed) Matthews Correlation Coefficient Contrafold: 0.556 Mastr(seed): 0.072 Sensitivity Contrafold: 0.542 Mastr(seed): 0.006 Positive Predictive Value Contrafold: 0.571 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs Mastr(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 Mastr(seed): 0.072 Sensitivity MXScarna(seed): 0.382 Mastr(seed): 0.006 Positive Predictive Value MXScarna(seed): 0.753 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs Mastr(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 Mastr(seed): 0.072 Sensitivity RNAalifold(20): 0.359 Mastr(seed): 0.006 Positive Predictive Value RNAalifold(20): 0.787 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs Mastr(seed) Matthews Correlation Coefficient Sfold: 0.527 Mastr(seed): 0.072 Sensitivity Sfold: 0.477 Mastr(seed): 0.006 Positive Predictive Value Sfold: 0.582 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs Mastr(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.523 Mastr(seed): 0.072 Sensitivity RNAalifold(seed): 0.328 Mastr(seed): 0.006 Positive Predictive Value RNAalifold(seed): 0.835 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs Mastr(seed) Matthews Correlation Coefficient MaxExpect: 0.516 Mastr(seed): 0.072 Sensitivity MaxExpect: 0.505 Mastr(seed): 0.006 Positive Predictive Value MaxExpect: 0.528 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs Mastr(seed) Matthews Correlation Coefficient ProbKnot: 0.512 Mastr(seed): 0.072 Sensitivity ProbKnot: 0.508 Mastr(seed): 0.006 Positive Predictive Value ProbKnot: 0.517 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs Mastr(seed) Matthews Correlation Coefficient MXScarna(20): 0.500 Mastr(seed): 0.072 Sensitivity MXScarna(20): 0.353 Mastr(seed): 0.006 Positive Predictive Value MXScarna(20): 0.710 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs Mastr(seed) Matthews Correlation Coefficient UNAFold: 0.494 Mastr(seed): 0.072 Sensitivity UNAFold: 0.491 Mastr(seed): 0.006 Positive Predictive Value UNAFold: 0.498 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs Mastr(seed) Matthews Correlation Coefficient Fold: 0.493 Mastr(seed): 0.072 Sensitivity Fold: 0.496 Mastr(seed): 0.006 Positive Predictive Value Fold: 0.490 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs Mastr(seed) Matthews Correlation Coefficient RNAfold: 0.485 Mastr(seed): 0.072 Sensitivity RNAfold: 0.486 Mastr(seed): 0.006 Positive Predictive Value RNAfold: 0.485 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs Mastr(seed) Matthews Correlation Coefficient PknotsRG: 0.474 Mastr(seed): 0.072 Sensitivity PknotsRG: 0.440 Mastr(seed): 0.006 Positive Predictive Value PknotsRG: 0.510 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs Mastr(seed) Matthews Correlation Coefficient CRWrnafold: 0.430 Mastr(seed): 0.072 Sensitivity CRWrnafold: 0.379 Mastr(seed): 0.006 Positive Predictive Value CRWrnafold: 0.490 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs Mastr(seed) Matthews Correlation Coefficient RNAsubopt: 0.422 Mastr(seed): 0.072 Sensitivity RNAsubopt: 0.344 Mastr(seed): 0.006 Positive Predictive Value RNAsubopt: 0.519 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs Mastr(seed) Matthews Correlation Coefficient TurboFold(20): 0.419 Mastr(seed): 0.072 Sensitivity TurboFold(20): 0.210 Mastr(seed): 0.006 Positive Predictive Value TurboFold(20): 0.837 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs Mastr(seed) Matthews Correlation Coefficient PPfold(20): 0.416 Mastr(seed): 0.072 Sensitivity PPfold(20): 0.197 Mastr(seed): 0.006 Positive Predictive Value PPfold(20): 0.879 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs Mastr(seed) Matthews Correlation Coefficient Afold: 0.408 Mastr(seed): 0.072 Sensitivity Afold: 0.343 Mastr(seed): 0.006 Positive Predictive Value Afold: 0.487 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs Mastr(seed) Matthews Correlation Coefficient Carnac(20): 0.401 Mastr(seed): 0.072 Sensitivity Carnac(20): 0.180 Mastr(seed): 0.006 Positive Predictive Value Carnac(20): 0.892 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs Mastr(seed) Matthews Correlation Coefficient McQFold: 0.389 Mastr(seed): 0.072 Sensitivity McQFold: 0.308 Mastr(seed): 0.006 Positive Predictive Value McQFold: 0.492 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs Mastr(seed) Matthews Correlation Coefficient RSpredict(20): 0.377 Mastr(seed): 0.072 Sensitivity RSpredict(20): 0.241 Mastr(seed): 0.006 Positive Predictive Value RSpredict(20): 0.590 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs Mastr(seed) Matthews Correlation Coefficient RNAshapes: 0.367 Mastr(seed): 0.072 Sensitivity RNAshapes: 0.285 Mastr(seed): 0.006 Positive Predictive Value RNAshapes: 0.474 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs Mastr(seed) Matthews Correlation Coefficient RNASLOpt: 0.364 Mastr(seed): 0.072 Sensitivity RNASLOpt: 0.261 Mastr(seed): 0.006 Positive Predictive Value RNASLOpt: 0.510 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs Mastr(seed) Matthews Correlation Coefficient Multilign(20): 0.350 Mastr(seed): 0.072 Sensitivity Multilign(20): 0.161 Mastr(seed): 0.006 Positive Predictive Value Multilign(20): 0.762 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs Mastr(seed) Matthews Correlation Coefficient Murlet(20): 0.321 Mastr(seed): 0.072 Sensitivity Murlet(20): 0.131 Mastr(seed): 0.006 Positive Predictive Value Murlet(20): 0.787 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs Mastr(seed) Matthews Correlation Coefficient RNAwolf: 0.310 Mastr(seed): 0.072 Sensitivity RNAwolf: 0.261 Mastr(seed): 0.006 Positive Predictive Value RNAwolf: 0.369 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs Mastr(seed) Matthews Correlation Coefficient RSpredict(seed): 0.295 Mastr(seed): 0.072 Sensitivity RSpredict(seed): 0.146 Mastr(seed): 0.006 Positive Predictive Value RSpredict(seed): 0.597 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs Mastr(seed) Matthews Correlation Coefficient CMfinder(20): 0.292 Mastr(seed): 0.072 Sensitivity CMfinder(20): 0.107 Mastr(seed): 0.006 Positive Predictive Value CMfinder(20): 0.794 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold4 vs Mastr(seed) Matthews Correlation Coefficient Vsfold4: 0.270 Mastr(seed): 0.072 Sensitivity Vsfold4: 0.198 Mastr(seed): 0.006 Positive Predictive Value Vsfold4: 0.371 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold5 vs Mastr(seed) Matthews Correlation Coefficient Vsfold5: 0.260 Mastr(seed): 0.072 Sensitivity Vsfold5: 0.195 Mastr(seed): 0.006 Positive Predictive Value Vsfold5: 0.347 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(20) vs Mastr(seed) Matthews Correlation Coefficient RNASampler(20): 0.246 Mastr(seed): 0.072 Sensitivity RNASampler(20): 0.069 Mastr(seed): 0.006 Positive Predictive Value RNASampler(20): 0.877 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 HotKnots vs Mastr(seed) Matthews Correlation Coefficient HotKnots: 0.212 Mastr(seed): 0.072 Sensitivity HotKnots: 0.069 Mastr(seed): 0.006 Positive Predictive Value HotKnots: 0.659 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Mastr(20) vs Mastr(seed) Matthews Correlation Coefficient Mastr(20): 0.187 Mastr(seed): 0.072 Sensitivity Mastr(20): 0.044 Mastr(seed): 0.006 Positive Predictive Value Mastr(20): 0.790 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Cylofold vs Mastr(seed) Matthews Correlation Coefficient Cylofold: 0.178 Mastr(seed): 0.072 Sensitivity Cylofold: 0.053 Mastr(seed): 0.006 Positive Predictive Value Cylofold: 0.597 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Pknots vs Mastr(seed) Matthews Correlation Coefficient Pknots: 0.165 Mastr(seed): 0.072 Sensitivity Pknots: 0.041 Mastr(seed): 0.006 Positive Predictive Value Pknots: 0.662 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Alterna vs Mastr(seed) Matthews Correlation Coefficient Alterna: 0.145 Mastr(seed): 0.072 Sensitivity Alterna: 0.036 Mastr(seed): 0.006 Positive Predictive Value Alterna: 0.582 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MCFold vs Mastr(seed) Matthews Correlation Coefficient MCFold: 0.138 Mastr(seed): 0.072 Sensitivity MCFold: 0.044 Mastr(seed): 0.006 Positive Predictive Value MCFold: 0.432 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RDfolder vs Mastr(seed) Matthews Correlation Coefficient RDfolder: 0.138 Mastr(seed): 0.072 Sensitivity RDfolder: 0.031 Mastr(seed): 0.006 Positive Predictive Value RDfolder: 0.615 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(seed) vs Mastr(seed) Matthews Correlation Coefficient Murlet(seed): 0.110 Mastr(seed): 0.072 Sensitivity Murlet(seed): 0.015 Mastr(seed): 0.006 Positive Predictive Value Murlet(seed): 0.811 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(seed) vs Mastr(seed) Matthews Correlation Coefficient CMfinder(seed): 0.111 Mastr(seed): 0.072 Sensitivity CMfinder(seed): 0.016 Mastr(seed): 0.006 Positive Predictive Value CMfinder(seed): 0.757 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(seed) vs Mastr(seed) Matthews Correlation Coefficient TurboFold(seed): 0.106 Mastr(seed): 0.072 Sensitivity TurboFold(seed): 0.014 Mastr(seed): 0.006 Positive Predictive Value TurboFold(seed): 0.822 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(seed) vs Mastr(seed) Matthews Correlation Coefficient PPfold(seed): 0.097 Mastr(seed): 0.072 Sensitivity PPfold(seed): 0.012 Mastr(seed): 0.006 Positive Predictive Value PPfold(seed): 0.794 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(seed) vs Mastr(seed) Matthews Correlation Coefficient Carnac(seed): 0.093 Mastr(seed): 0.072 Sensitivity Carnac(seed): 0.010 Mastr(seed): 0.006 Positive Predictive Value Carnac(seed): 0.867 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(seed) vs Mastr(seed) Matthews Correlation Coefficient RNASampler(seed): 0.088 Mastr(seed): 0.072 Sensitivity RNASampler(seed): 0.009 Mastr(seed): 0.006 Positive Predictive Value RNASampler(seed): 0.847 Mastr(seed): 0.820 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08		+ Mastr(seed) vs NanoFolder Matthews Correlation Coefficient Mastr(seed): 0.072 NanoFolder: 0.068 Sensitivity Mastr(seed): 0.006 NanoFolder: 0.027 Positive Predictive Value Mastr(seed): 0.820 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 1.14023792096e-06	+ Mastr(seed) vs Multilign(seed) Matthews Correlation Coefficient Mastr(seed): 0.072 Multilign(seed): 0.059 Sensitivity Mastr(seed): 0.006 Multilign(seed): 0.005 Positive Predictive Value Mastr(seed): 0.820 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
NanoFolder	1242 ContextFold vs NanoFolder Matthews Correlation Coefficient ContextFold: 0.754 NanoFolder: 0.068 Sensitivity ContextFold: 0.717 NanoFolder: 0.027 Positive Predictive Value ContextFold: 0.794 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs NanoFolder Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 NanoFolder: 0.068 Sensitivity PETfold_pre2.0(seed): 0.667 NanoFolder: 0.027 Positive Predictive Value PETfold_pre2.0(seed): 0.814 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs NanoFolder Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 NanoFolder: 0.068 Sensitivity CentroidAlifold(seed): 0.414 NanoFolder: 0.027 Positive Predictive Value CentroidAlifold(seed): 0.901 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs NanoFolder Matthews Correlation Coefficient IPknot: 0.607 NanoFolder: 0.068 Sensitivity IPknot: 0.551 NanoFolder: 0.027 Positive Predictive Value IPknot: 0.670 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs NanoFolder Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 NanoFolder: 0.068 Sensitivity PETfold_pre2.0(20): 0.410 NanoFolder: 0.027 Positive Predictive Value PETfold_pre2.0(20): 0.807 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs NanoFolder Matthews Correlation Coefficient CentroidFold: 0.571 NanoFolder: 0.068 Sensitivity CentroidFold: 0.515 NanoFolder: 0.027 Positive Predictive Value CentroidFold: 0.633 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs NanoFolder Matthews Correlation Coefficient CentroidAlifold(20): 0.573 NanoFolder: 0.068 Sensitivity CentroidAlifold(20): 0.369 NanoFolder: 0.027 Positive Predictive Value CentroidAlifold(20): 0.891 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs NanoFolder Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 NanoFolder: 0.068 Sensitivity CentroidHomfold‑LAST: 0.359 NanoFolder: 0.027 Positive Predictive Value CentroidHomfold‑LAST: 0.874 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs NanoFolder Matthews Correlation Coefficient Contrafold: 0.556 NanoFolder: 0.068 Sensitivity Contrafold: 0.542 NanoFolder: 0.027 Positive Predictive Value Contrafold: 0.571 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs NanoFolder Matthews Correlation Coefficient MXScarna(seed): 0.536 NanoFolder: 0.068 Sensitivity MXScarna(seed): 0.382 NanoFolder: 0.027 Positive Predictive Value MXScarna(seed): 0.753 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs NanoFolder Matthews Correlation Coefficient RNAalifold(20): 0.532 NanoFolder: 0.068 Sensitivity RNAalifold(20): 0.359 NanoFolder: 0.027 Positive Predictive Value RNAalifold(20): 0.787 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs NanoFolder Matthews Correlation Coefficient Sfold: 0.527 NanoFolder: 0.068 Sensitivity Sfold: 0.477 NanoFolder: 0.027 Positive Predictive Value Sfold: 0.582 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs NanoFolder Matthews Correlation Coefficient RNAalifold(seed): 0.523 NanoFolder: 0.068 Sensitivity RNAalifold(seed): 0.328 NanoFolder: 0.027 Positive Predictive Value RNAalifold(seed): 0.835 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs NanoFolder Matthews Correlation Coefficient MaxExpect: 0.516 NanoFolder: 0.068 Sensitivity MaxExpect: 0.505 NanoFolder: 0.027 Positive Predictive Value MaxExpect: 0.528 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs NanoFolder Matthews Correlation Coefficient ProbKnot: 0.512 NanoFolder: 0.068 Sensitivity ProbKnot: 0.508 NanoFolder: 0.027 Positive Predictive Value ProbKnot: 0.517 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs NanoFolder Matthews Correlation Coefficient MXScarna(20): 0.500 NanoFolder: 0.068 Sensitivity MXScarna(20): 0.353 NanoFolder: 0.027 Positive Predictive Value MXScarna(20): 0.710 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs NanoFolder Matthews Correlation Coefficient UNAFold: 0.494 NanoFolder: 0.068 Sensitivity UNAFold: 0.491 NanoFolder: 0.027 Positive Predictive Value UNAFold: 0.498 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs NanoFolder Matthews Correlation Coefficient Fold: 0.493 NanoFolder: 0.068 Sensitivity Fold: 0.496 NanoFolder: 0.027 Positive Predictive Value Fold: 0.490 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs NanoFolder Matthews Correlation Coefficient RNAfold: 0.485 NanoFolder: 0.068 Sensitivity RNAfold: 0.486 NanoFolder: 0.027 Positive Predictive Value RNAfold: 0.485 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs NanoFolder Matthews Correlation Coefficient PknotsRG: 0.474 NanoFolder: 0.068 Sensitivity PknotsRG: 0.440 NanoFolder: 0.027 Positive Predictive Value PknotsRG: 0.510 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs NanoFolder Matthews Correlation Coefficient CRWrnafold: 0.430 NanoFolder: 0.068 Sensitivity CRWrnafold: 0.379 NanoFolder: 0.027 Positive Predictive Value CRWrnafold: 0.490 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs NanoFolder Matthews Correlation Coefficient RNAsubopt: 0.422 NanoFolder: 0.068 Sensitivity RNAsubopt: 0.344 NanoFolder: 0.027 Positive Predictive Value RNAsubopt: 0.519 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs NanoFolder Matthews Correlation Coefficient TurboFold(20): 0.419 NanoFolder: 0.068 Sensitivity TurboFold(20): 0.210 NanoFolder: 0.027 Positive Predictive Value TurboFold(20): 0.837 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs NanoFolder Matthews Correlation Coefficient PPfold(20): 0.416 NanoFolder: 0.068 Sensitivity PPfold(20): 0.197 NanoFolder: 0.027 Positive Predictive Value PPfold(20): 0.879 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs NanoFolder Matthews Correlation Coefficient Afold: 0.408 NanoFolder: 0.068 Sensitivity Afold: 0.343 NanoFolder: 0.027 Positive Predictive Value Afold: 0.487 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs NanoFolder Matthews Correlation Coefficient Carnac(20): 0.401 NanoFolder: 0.068 Sensitivity Carnac(20): 0.180 NanoFolder: 0.027 Positive Predictive Value Carnac(20): 0.892 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs NanoFolder Matthews Correlation Coefficient McQFold: 0.389 NanoFolder: 0.068 Sensitivity McQFold: 0.308 NanoFolder: 0.027 Positive Predictive Value McQFold: 0.492 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs NanoFolder Matthews Correlation Coefficient RSpredict(20): 0.377 NanoFolder: 0.068 Sensitivity RSpredict(20): 0.241 NanoFolder: 0.027 Positive Predictive Value RSpredict(20): 0.590 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs NanoFolder Matthews Correlation Coefficient RNAshapes: 0.367 NanoFolder: 0.068 Sensitivity RNAshapes: 0.285 NanoFolder: 0.027 Positive Predictive Value RNAshapes: 0.474 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs NanoFolder Matthews Correlation Coefficient RNASLOpt: 0.364 NanoFolder: 0.068 Sensitivity RNASLOpt: 0.261 NanoFolder: 0.027 Positive Predictive Value RNASLOpt: 0.510 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs NanoFolder Matthews Correlation Coefficient Multilign(20): 0.350 NanoFolder: 0.068 Sensitivity Multilign(20): 0.161 NanoFolder: 0.027 Positive Predictive Value Multilign(20): 0.762 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs NanoFolder Matthews Correlation Coefficient Murlet(20): 0.321 NanoFolder: 0.068 Sensitivity Murlet(20): 0.131 NanoFolder: 0.027 Positive Predictive Value Murlet(20): 0.787 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs NanoFolder Matthews Correlation Coefficient RNAwolf: 0.310 NanoFolder: 0.068 Sensitivity RNAwolf: 0.261 NanoFolder: 0.027 Positive Predictive Value RNAwolf: 0.369 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs NanoFolder Matthews Correlation Coefficient RSpredict(seed): 0.295 NanoFolder: 0.068 Sensitivity RSpredict(seed): 0.146 NanoFolder: 0.027 Positive Predictive Value RSpredict(seed): 0.597 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs NanoFolder Matthews Correlation Coefficient CMfinder(20): 0.292 NanoFolder: 0.068 Sensitivity CMfinder(20): 0.107 NanoFolder: 0.027 Positive Predictive Value CMfinder(20): 0.794 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold4 vs NanoFolder Matthews Correlation Coefficient Vsfold4: 0.270 NanoFolder: 0.068 Sensitivity Vsfold4: 0.198 NanoFolder: 0.027 Positive Predictive Value Vsfold4: 0.371 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold5 vs NanoFolder Matthews Correlation Coefficient Vsfold5: 0.260 NanoFolder: 0.068 Sensitivity Vsfold5: 0.195 NanoFolder: 0.027 Positive Predictive Value Vsfold5: 0.347 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(20) vs NanoFolder Matthews Correlation Coefficient RNASampler(20): 0.246 NanoFolder: 0.068 Sensitivity RNASampler(20): 0.069 NanoFolder: 0.027 Positive Predictive Value RNASampler(20): 0.877 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 HotKnots vs NanoFolder Matthews Correlation Coefficient HotKnots: 0.212 NanoFolder: 0.068 Sensitivity HotKnots: 0.069 NanoFolder: 0.027 Positive Predictive Value HotKnots: 0.659 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Mastr(20) vs NanoFolder Matthews Correlation Coefficient Mastr(20): 0.187 NanoFolder: 0.068 Sensitivity Mastr(20): 0.044 NanoFolder: 0.027 Positive Predictive Value Mastr(20): 0.790 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Cylofold vs NanoFolder Matthews Correlation Coefficient Cylofold: 0.178 NanoFolder: 0.068 Sensitivity Cylofold: 0.053 NanoFolder: 0.027 Positive Predictive Value Cylofold: 0.597 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Pknots vs NanoFolder Matthews Correlation Coefficient Pknots: 0.165 NanoFolder: 0.068 Sensitivity Pknots: 0.041 NanoFolder: 0.027 Positive Predictive Value Pknots: 0.662 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Alterna vs NanoFolder Matthews Correlation Coefficient Alterna: 0.145 NanoFolder: 0.068 Sensitivity Alterna: 0.036 NanoFolder: 0.027 Positive Predictive Value Alterna: 0.582 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MCFold vs NanoFolder Matthews Correlation Coefficient MCFold: 0.138 NanoFolder: 0.068 Sensitivity MCFold: 0.044 NanoFolder: 0.027 Positive Predictive Value MCFold: 0.432 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RDfolder vs NanoFolder Matthews Correlation Coefficient RDfolder: 0.138 NanoFolder: 0.068 Sensitivity RDfolder: 0.031 NanoFolder: 0.027 Positive Predictive Value RDfolder: 0.615 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(seed) vs NanoFolder Matthews Correlation Coefficient Murlet(seed): 0.110 NanoFolder: 0.068 Sensitivity Murlet(seed): 0.015 NanoFolder: 0.027 Positive Predictive Value Murlet(seed): 0.811 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(seed) vs NanoFolder Matthews Correlation Coefficient CMfinder(seed): 0.111 NanoFolder: 0.068 Sensitivity CMfinder(seed): 0.016 NanoFolder: 0.027 Positive Predictive Value CMfinder(seed): 0.757 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(seed) vs NanoFolder Matthews Correlation Coefficient TurboFold(seed): 0.106 NanoFolder: 0.068 Sensitivity TurboFold(seed): 0.014 NanoFolder: 0.027 Positive Predictive Value TurboFold(seed): 0.822 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(seed) vs NanoFolder Matthews Correlation Coefficient PPfold(seed): 0.097 NanoFolder: 0.068 Sensitivity PPfold(seed): 0.012 NanoFolder: 0.027 Positive Predictive Value PPfold(seed): 0.794 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(seed) vs NanoFolder Matthews Correlation Coefficient Carnac(seed): 0.093 NanoFolder: 0.068 Sensitivity Carnac(seed): 0.010 NanoFolder: 0.027 Positive Predictive Value Carnac(seed): 0.867 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(seed) vs NanoFolder Matthews Correlation Coefficient RNASampler(seed): 0.088 NanoFolder: 0.068 Sensitivity RNASampler(seed): 0.009 NanoFolder: 0.027 Positive Predictive Value RNASampler(seed): 0.847 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Mastr(seed) vs NanoFolder Matthews Correlation Coefficient Mastr(seed): 0.072 NanoFolder: 0.068 Sensitivity Mastr(seed): 0.006 NanoFolder: 0.027 Positive Predictive Value Mastr(seed): 0.820 NanoFolder: 0.173 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 1.14023792096e-06		+ NanoFolder vs Multilign(seed) Matthews Correlation Coefficient NanoFolder: 0.068 Multilign(seed): 0.059 Sensitivity NanoFolder: 0.027 Multilign(seed): 0.005 Positive Predictive Value NanoFolder: 0.173 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08
Multilign(seed)	1242 ContextFold vs Multilign(seed) Matthews Correlation Coefficient ContextFold: 0.754 Multilign(seed): 0.059 Sensitivity ContextFold: 0.717 Multilign(seed): 0.005 Positive Predictive Value ContextFold: 0.794 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(seed) vs Multilign(seed) Matthews Correlation Coefficient PETfold_pre2.0(seed): 0.737 Multilign(seed): 0.059 Sensitivity PETfold_pre2.0(seed): 0.667 Multilign(seed): 0.005 Positive Predictive Value PETfold_pre2.0(seed): 0.814 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(seed) vs Multilign(seed) Matthews Correlation Coefficient CentroidAlifold(seed): 0.611 Multilign(seed): 0.059 Sensitivity CentroidAlifold(seed): 0.414 Multilign(seed): 0.005 Positive Predictive Value CentroidAlifold(seed): 0.901 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 IPknot vs Multilign(seed) Matthews Correlation Coefficient IPknot: 0.607 Multilign(seed): 0.059 Sensitivity IPknot: 0.551 Multilign(seed): 0.005 Positive Predictive Value IPknot: 0.670 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PETfold_pre2.0(20) vs Multilign(seed) Matthews Correlation Coefficient PETfold_pre2.0(20): 0.575 Multilign(seed): 0.059 Sensitivity PETfold_pre2.0(20): 0.410 Multilign(seed): 0.005 Positive Predictive Value PETfold_pre2.0(20): 0.807 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidFold vs Multilign(seed) Matthews Correlation Coefficient CentroidFold: 0.571 Multilign(seed): 0.059 Sensitivity CentroidFold: 0.515 Multilign(seed): 0.005 Positive Predictive Value CentroidFold: 0.633 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidAlifold(20) vs Multilign(seed) Matthews Correlation Coefficient CentroidAlifold(20): 0.573 Multilign(seed): 0.059 Sensitivity CentroidAlifold(20): 0.369 Multilign(seed): 0.005 Positive Predictive Value CentroidAlifold(20): 0.891 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CentroidHomfold‑LAST vs Multilign(seed) Matthews Correlation Coefficient CentroidHomfold‑LAST: 0.560 Multilign(seed): 0.059 Sensitivity CentroidHomfold‑LAST: 0.359 Multilign(seed): 0.005 Positive Predictive Value CentroidHomfold‑LAST: 0.874 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Contrafold vs Multilign(seed) Matthews Correlation Coefficient Contrafold: 0.556 Multilign(seed): 0.059 Sensitivity Contrafold: 0.542 Multilign(seed): 0.005 Positive Predictive Value Contrafold: 0.571 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(seed) vs Multilign(seed) Matthews Correlation Coefficient MXScarna(seed): 0.536 Multilign(seed): 0.059 Sensitivity MXScarna(seed): 0.382 Multilign(seed): 0.005 Positive Predictive Value MXScarna(seed): 0.753 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(20) vs Multilign(seed) Matthews Correlation Coefficient RNAalifold(20): 0.532 Multilign(seed): 0.059 Sensitivity RNAalifold(20): 0.359 Multilign(seed): 0.005 Positive Predictive Value RNAalifold(20): 0.787 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Sfold vs Multilign(seed) Matthews Correlation Coefficient Sfold: 0.527 Multilign(seed): 0.059 Sensitivity Sfold: 0.477 Multilign(seed): 0.005 Positive Predictive Value Sfold: 0.582 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAalifold(seed) vs Multilign(seed) Matthews Correlation Coefficient RNAalifold(seed): 0.523 Multilign(seed): 0.059 Sensitivity RNAalifold(seed): 0.328 Multilign(seed): 0.005 Positive Predictive Value RNAalifold(seed): 0.835 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MaxExpect vs Multilign(seed) Matthews Correlation Coefficient MaxExpect: 0.516 Multilign(seed): 0.059 Sensitivity MaxExpect: 0.505 Multilign(seed): 0.005 Positive Predictive Value MaxExpect: 0.528 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 ProbKnot vs Multilign(seed) Matthews Correlation Coefficient ProbKnot: 0.512 Multilign(seed): 0.059 Sensitivity ProbKnot: 0.508 Multilign(seed): 0.005 Positive Predictive Value ProbKnot: 0.517 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MXScarna(20) vs Multilign(seed) Matthews Correlation Coefficient MXScarna(20): 0.500 Multilign(seed): 0.059 Sensitivity MXScarna(20): 0.353 Multilign(seed): 0.005 Positive Predictive Value MXScarna(20): 0.710 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 UNAFold vs Multilign(seed) Matthews Correlation Coefficient UNAFold: 0.494 Multilign(seed): 0.059 Sensitivity UNAFold: 0.491 Multilign(seed): 0.005 Positive Predictive Value UNAFold: 0.498 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Fold vs Multilign(seed) Matthews Correlation Coefficient Fold: 0.493 Multilign(seed): 0.059 Sensitivity Fold: 0.496 Multilign(seed): 0.005 Positive Predictive Value Fold: 0.490 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAfold vs Multilign(seed) Matthews Correlation Coefficient RNAfold: 0.485 Multilign(seed): 0.059 Sensitivity RNAfold: 0.486 Multilign(seed): 0.005 Positive Predictive Value RNAfold: 0.485 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PknotsRG vs Multilign(seed) Matthews Correlation Coefficient PknotsRG: 0.474 Multilign(seed): 0.059 Sensitivity PknotsRG: 0.440 Multilign(seed): 0.005 Positive Predictive Value PknotsRG: 0.510 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CRWrnafold vs Multilign(seed) Matthews Correlation Coefficient CRWrnafold: 0.430 Multilign(seed): 0.059 Sensitivity CRWrnafold: 0.379 Multilign(seed): 0.005 Positive Predictive Value CRWrnafold: 0.490 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAsubopt vs Multilign(seed) Matthews Correlation Coefficient RNAsubopt: 0.422 Multilign(seed): 0.059 Sensitivity RNAsubopt: 0.344 Multilign(seed): 0.005 Positive Predictive Value RNAsubopt: 0.519 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(20) vs Multilign(seed) Matthews Correlation Coefficient TurboFold(20): 0.419 Multilign(seed): 0.059 Sensitivity TurboFold(20): 0.210 Multilign(seed): 0.005 Positive Predictive Value TurboFold(20): 0.837 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(20) vs Multilign(seed) Matthews Correlation Coefficient PPfold(20): 0.416 Multilign(seed): 0.059 Sensitivity PPfold(20): 0.197 Multilign(seed): 0.005 Positive Predictive Value PPfold(20): 0.879 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Afold vs Multilign(seed) Matthews Correlation Coefficient Afold: 0.408 Multilign(seed): 0.059 Sensitivity Afold: 0.343 Multilign(seed): 0.005 Positive Predictive Value Afold: 0.487 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(20) vs Multilign(seed) Matthews Correlation Coefficient Carnac(20): 0.401 Multilign(seed): 0.059 Sensitivity Carnac(20): 0.180 Multilign(seed): 0.005 Positive Predictive Value Carnac(20): 0.892 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 McQFold vs Multilign(seed) Matthews Correlation Coefficient McQFold: 0.389 Multilign(seed): 0.059 Sensitivity McQFold: 0.308 Multilign(seed): 0.005 Positive Predictive Value McQFold: 0.492 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(20) vs Multilign(seed) Matthews Correlation Coefficient RSpredict(20): 0.377 Multilign(seed): 0.059 Sensitivity RSpredict(20): 0.241 Multilign(seed): 0.005 Positive Predictive Value RSpredict(20): 0.590 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAshapes vs Multilign(seed) Matthews Correlation Coefficient RNAshapes: 0.367 Multilign(seed): 0.059 Sensitivity RNAshapes: 0.285 Multilign(seed): 0.005 Positive Predictive Value RNAshapes: 0.474 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASLOpt vs Multilign(seed) Matthews Correlation Coefficient RNASLOpt: 0.364 Multilign(seed): 0.059 Sensitivity RNASLOpt: 0.261 Multilign(seed): 0.005 Positive Predictive Value RNASLOpt: 0.510 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Multilign(20) vs Multilign(seed) Matthews Correlation Coefficient Multilign(20): 0.350 Multilign(seed): 0.059 Sensitivity Multilign(20): 0.161 Multilign(seed): 0.005 Positive Predictive Value Multilign(20): 0.762 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(20) vs Multilign(seed) Matthews Correlation Coefficient Murlet(20): 0.321 Multilign(seed): 0.059 Sensitivity Murlet(20): 0.131 Multilign(seed): 0.005 Positive Predictive Value Murlet(20): 0.787 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNAwolf vs Multilign(seed) Matthews Correlation Coefficient RNAwolf: 0.310 Multilign(seed): 0.059 Sensitivity RNAwolf: 0.261 Multilign(seed): 0.005 Positive Predictive Value RNAwolf: 0.369 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RSpredict(seed) vs Multilign(seed) Matthews Correlation Coefficient RSpredict(seed): 0.295 Multilign(seed): 0.059 Sensitivity RSpredict(seed): 0.146 Multilign(seed): 0.005 Positive Predictive Value RSpredict(seed): 0.597 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(20) vs Multilign(seed) Matthews Correlation Coefficient CMfinder(20): 0.292 Multilign(seed): 0.059 Sensitivity CMfinder(20): 0.107 Multilign(seed): 0.005 Positive Predictive Value CMfinder(20): 0.794 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold4 vs Multilign(seed) Matthews Correlation Coefficient Vsfold4: 0.270 Multilign(seed): 0.059 Sensitivity Vsfold4: 0.198 Multilign(seed): 0.005 Positive Predictive Value Vsfold4: 0.371 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Vsfold5 vs Multilign(seed) Matthews Correlation Coefficient Vsfold5: 0.260 Multilign(seed): 0.059 Sensitivity Vsfold5: 0.195 Multilign(seed): 0.005 Positive Predictive Value Vsfold5: 0.347 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(20) vs Multilign(seed) Matthews Correlation Coefficient RNASampler(20): 0.246 Multilign(seed): 0.059 Sensitivity RNASampler(20): 0.069 Multilign(seed): 0.005 Positive Predictive Value RNASampler(20): 0.877 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 HotKnots vs Multilign(seed) Matthews Correlation Coefficient HotKnots: 0.212 Multilign(seed): 0.059 Sensitivity HotKnots: 0.069 Multilign(seed): 0.005 Positive Predictive Value HotKnots: 0.659 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Mastr(20) vs Multilign(seed) Matthews Correlation Coefficient Mastr(20): 0.187 Multilign(seed): 0.059 Sensitivity Mastr(20): 0.044 Multilign(seed): 0.005 Positive Predictive Value Mastr(20): 0.790 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Cylofold vs Multilign(seed) Matthews Correlation Coefficient Cylofold: 0.178 Multilign(seed): 0.059 Sensitivity Cylofold: 0.053 Multilign(seed): 0.005 Positive Predictive Value Cylofold: 0.597 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Pknots vs Multilign(seed) Matthews Correlation Coefficient Pknots: 0.165 Multilign(seed): 0.059 Sensitivity Pknots: 0.041 Multilign(seed): 0.005 Positive Predictive Value Pknots: 0.662 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Alterna vs Multilign(seed) Matthews Correlation Coefficient Alterna: 0.145 Multilign(seed): 0.059 Sensitivity Alterna: 0.036 Multilign(seed): 0.005 Positive Predictive Value Alterna: 0.582 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 MCFold vs Multilign(seed) Matthews Correlation Coefficient MCFold: 0.138 Multilign(seed): 0.059 Sensitivity MCFold: 0.044 Multilign(seed): 0.005 Positive Predictive Value MCFold: 0.432 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RDfolder vs Multilign(seed) Matthews Correlation Coefficient RDfolder: 0.138 Multilign(seed): 0.059 Sensitivity RDfolder: 0.031 Multilign(seed): 0.005 Positive Predictive Value RDfolder: 0.615 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Murlet(seed) vs Multilign(seed) Matthews Correlation Coefficient Murlet(seed): 0.110 Multilign(seed): 0.059 Sensitivity Murlet(seed): 0.015 Multilign(seed): 0.005 Positive Predictive Value Murlet(seed): 0.811 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 CMfinder(seed) vs Multilign(seed) Matthews Correlation Coefficient CMfinder(seed): 0.111 Multilign(seed): 0.059 Sensitivity CMfinder(seed): 0.016 Multilign(seed): 0.005 Positive Predictive Value CMfinder(seed): 0.757 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 TurboFold(seed) vs Multilign(seed) Matthews Correlation Coefficient TurboFold(seed): 0.106 Multilign(seed): 0.059 Sensitivity TurboFold(seed): 0.014 Multilign(seed): 0.005 Positive Predictive Value TurboFold(seed): 0.822 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 PPfold(seed) vs Multilign(seed) Matthews Correlation Coefficient PPfold(seed): 0.097 Multilign(seed): 0.059 Sensitivity PPfold(seed): 0.012 Multilign(seed): 0.005 Positive Predictive Value PPfold(seed): 0.794 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Carnac(seed) vs Multilign(seed) Matthews Correlation Coefficient Carnac(seed): 0.093 Multilign(seed): 0.059 Sensitivity Carnac(seed): 0.010 Multilign(seed): 0.005 Positive Predictive Value Carnac(seed): 0.867 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 RNASampler(seed) vs Multilign(seed) Matthews Correlation Coefficient RNASampler(seed): 0.088 Multilign(seed): 0.059 Sensitivity RNASampler(seed): 0.009 Multilign(seed): 0.005 Positive Predictive Value RNASampler(seed): 0.847 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 Mastr(seed) vs Multilign(seed) Matthews Correlation Coefficient Mastr(seed): 0.072 Multilign(seed): 0.059 Sensitivity Mastr(seed): 0.006 Multilign(seed): 0.005 Positive Predictive Value Mastr(seed): 0.820 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 Wilcoxon single-rank test P-value: 3.56938820447e-08	1242 NanoFolder vs Multilign(seed) Matthews Correlation Coefficient NanoFolder: 0.068 Multilign(seed): 0.059 Sensitivity NanoFolder: 0.027 Multilign(seed): 0.005 Positive Predictive Value NanoFolder: 0.173 Multilign(seed): 0.741 Number of pairs reference - predicted secondary structure: 1242 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 for Rfam families

Summary of pairwise comparisons

Detailed results of pairwise comparisons between methods

All RNAs from the RNAstrand dataset
robustness test for Rfam families