CompaRNA - on-line benchmarks of RNA structure prediction methods

Laboratory of Structural Bioinformatics @ Adam Mickiewicz University in Poznan

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Overview

Metric	ProbKnot		NanoFolder
MCC	0.548	>	0.174
Average MCC ± 95% Confidence Intervals	0.547 ± 0.034	>	0.183 ± 0.028
Sensitivity	0.540	>	0.207
Positive Predictive Value	0.558	>	0.149
Total TP	5898	>	2258
Total TN	6809909	>	6805326
Total FP	5552	<	13384
Total FP CONTRA	910	<	2402
Total FP INCONS	3768	<	10499
Total FP COMP	874	>	483
Total FN	5034	<	8674
P-value	3.56938820447e-08

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Performance plots

Comparison of performance of ProbKnot and NanoFolder. Positive Predictive Value (PPV) is plotted against sensitivity. Each dot represents a single test of each method. See tables below for raw data (individual counts for ProbKnot and NanoFolder).
Average Matthews Correlation Coefficients (MCC) with 95% confidence intervals (CIs) were plotted for different RNA families, for which at least 3 members were present in the benchmarking dataset. 'n' denotes the number of MCCs used to calculate the average and CI. See tables below for raw data (individual counts for ProbKnot and NanoFolder).
Comparison of average Matthews Correlation Coefficients (MCCs) for ProbKnot and NanoFolder. The whiskers correspond to 95% confidence intervals (CIs). 'n' denotes the number of MCCs used to calculate average MCCs and CIs. See tables below for raw data (individual counts for ProbKnot and NanoFolder).

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Performance of ProbKnot - scored higher in this pairwise comparison

1. Total counts & total scores for ProbKnot

Total Base Pair Counts
Total TP	5898
Total TN	6809909
Total FP	5552
Total FP CONTRA	910
Total FP INCONS	3768
Total FP COMP	874
Total FN	5034

Total Scores
MCC	0.548
Average MCC ± 95% Confidence Intervals	0.547 ± 0.034
Sensitivity	0.540
Positive Predictive Value	0.558
Nr of predictions	112

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2. Individual counts for ProbKnot [ download as .csv ]

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
ASE_00017	RNaseP_nuc links to Rfam database...	0.17	0.20	0.15	13	50951	92	28	48	16	51
ASE_00083	RNaseP_bact_a links to Rfam database...	0.68	0.66	0.70	73	62377	38	8	23	7	37
ASE_00122	RNaseP_bact_a links to Rfam database...	0.69	0.64	0.76	56	43291	18	0	18	0	32
ASE_00185	RNaseP_bact_a links to Rfam database...	0.76	0.72	0.81	92	73422	29	1	21	7	36
ASE_00190	RNaseP_bact_b links to Rfam database...	0.62	0.61	0.63	55	45364	35	4	28	3	35
ASE_00196	RNaseP_arch links to Rfam database...	0.79	0.79	0.79	59	31551	23	2	14	7	16
ASE_00221	RNaseP_bact_a links to Rfam database...	0.65	0.56	0.75	66	64532	28	0	22	6	51
ASE_00227	RNaseP_bact_a links to Rfam database...	0.55	0.54	0.56	72	78875	56	7	49	0	61
ASE_00228	RNaseP_bact_a links to Rfam database...	0.57	0.55	0.59	47	46892	33	9	23	1	39
ASE_00229	RNaseP_bact_a links to Rfam database...	0.69	0.66	0.72	57	42407	29	4	18	7	30
ASE_00231	RNaseP_bact_a links to Rfam database...	0.62	0.60	0.63	58	47803	38	6	28	4	38
ASE_00234	RNaseP_bact_a links to Rfam database...	0.59	0.55	0.63	71	75354	48	3	38	7	58
ASE_00238	RNaseP_bact_a links to Rfam database...	0.72	0.65	0.80	74	64168	26	2	17	7	40
ASE_00248	RNaseP_bact_a links to Rfam database...	0.40	0.37	0.44	42	62386	55	4	49	2	72
ASE_00250	RNaseP_bact_a links to Rfam database...	0.62	0.59	0.66	77	78887	44	8	31	5	54
ASE_00254	RNaseP_bact_a links to Rfam database...	0.37	0.33	0.42	27	36792	44	3	34	7	55
ASE_00255	RNaseP_bact_a links to Rfam database...	0.55	0.54	0.56	70	74565	59	5	51	3	60
ASE_00257	RNaseP_bact_a links to Rfam database...	0.66	0.63	0.70	61	50953	33	1	25	7	36
ASE_00267	RNaseP_bact_a links to Rfam database...	0.64	0.59	0.69	52	45075	34	4	19	11	36
ASE_00270	RNaseP_bact_a links to Rfam database...	0.80	0.79	0.82	101	72267	29	1	21	7	27
ASE_00274	RNaseP_bact_a links to Rfam database...	0.64	0.56	0.73	58	55531	25	5	17	3	45
ASE_00277	RNaseP_bact_a links to Rfam database...	0.44	0.44	0.44	40	48114	53	9	42	2	51
ASE_00279	RNaseP_bact_a links to Rfam database...	0.50	0.49	0.52	49	53206	50	6	40	4	52
ASE_00285	RNaseP_bact_a links to Rfam database...	0.78	0.71	0.85	87	68904	26	4	11	11	35
ASE_00287	RNaseP_bact_a links to Rfam database...	0.73	0.70	0.76	72	54851	26	3	20	3	31
ASE_00294	RNaseP_bact_a links to Rfam database...	0.75	0.67	0.85	115	114345	27	2	19	6	56
ASE_00295	RNaseP_bact_a links to Rfam database...	0.61	0.60	0.62	78	73795	50	7	40	3	53
ASE_00298	RNaseP_bact_a links to Rfam database...	0.50	0.48	0.52	54	67424	55	2	48	5	59
ASE_00318	RNaseP_bact_b links to Rfam database...	0.63	0.64	0.63	75	80081	49	15	29	5	43
ASE_00335	RNaseP_bact_b links to Rfam database...	0.60	0.59	0.61	69	75353	49	8	36	5	47
ASE_00339	RNaseP_bact_a links to Rfam database...	0.67	0.61	0.74	72	80103	34	1	24	9	47
ASE_00340	RNaseP_bact_a links to Rfam database...	0.72	0.72	0.72	61	45971	30	7	17	6	24
ASE_00343	RNaseP_bact_a links to Rfam database...	0.70	0.69	0.71	78	83326	45	7	25	13	35
ASE_00367	RNaseP_bact_a links to Rfam database...	0.57	0.55	0.60	47	42993	40	5	26	9	39
ASE_00370	RNaseP_bact_a links to Rfam database...	0.73	0.70	0.77	59	41828	26	1	17	8	25
ASE_00372	RNaseP_bact_a links to Rfam database...	0.67	0.65	0.68	65	51908	37	7	23	7	35
ASE_00375	RNaseP_bact_a links to Rfam database...	0.82	0.77	0.87	85	60280	22	1	12	9	25
ASE_00376	RNaseP_bact_a links to Rfam database...	0.65	0.65	0.65	68	56849	41	5	31	5	37
ASE_00377	RNaseP_bact_a links to Rfam database...	0.75	0.74	0.76	79	57526	35	4	21	10	28
ASE_00386	RNaseP_bact_a links to Rfam database...	0.54	0.54	0.54	52	50307	48	7	37	4	44
ASE_00393	RNaseP_bact_a links to Rfam database...	0.47	0.42	0.53	39	47821	43	2	33	8	54
ASE_00412	RNaseP_bact_a links to Rfam database...	0.49	0.48	0.52	50	58214	51	8	39	4	55
ASE_00413	RNaseP_bact_a links to Rfam database...	0.64	0.67	0.62	54	44464	34	11	22	1	27
ASE_00416	RNaseP_bact_a links to Rfam database...	0.70	0.67	0.73	85	77305	41	2	29	10	42
ASE_00417	RNaseP_arch links to Rfam database...	0.36	0.37	0.35	37	54509	72	11	58	3	63
ASE_00422	RNaseP_bact_a links to Rfam database...	0.79	0.77	0.81	72	46882	24	3	14	7	22
ASE_00428	RNaseP_bact_a links to Rfam database...	0.78	0.75	0.82	94	76521	29	4	17	8	31
ASE_00429	-	0.56	0.52	0.61	34	28147	31	0	22	9	32
ASE_00430	RNaseP_bact_a links to Rfam database...	0.77	0.74	0.81	72	46882	24	3	14	7	25
ASE_00434	RNaseP_bact_b links to Rfam database...	0.62	0.61	0.64	67	68160	49	5	33	11	43
ASE_00437	RNaseP_bact_a links to Rfam database...	0.43	0.41	0.47	55	79283	69	1	62	6	80
ASE_00451	RNaseP_bact_a links to Rfam database...	0.62	0.60	0.65	75	70760	48	3	38	7	50
CRW_00648	-	0.61	0.61	0.61	90	137927	63	15	43	5	58
CRW_00654	-	0.68	0.68	0.69	84	78088	44	4	34	6	40
CRW_00658	-	0.49	0.50	0.48	51	74584	60	19	37	4	51
CRW_00663	-	0.00	0.00	0.00	0	26032	75	12	62	1	61
CRW_00664	-	0.21	0.24	0.19	19	53529	80	24	56	0	59
CRW_00671	Intron_gpI links to Rfam database...	0.79	0.77	0.80	90	62723	28	6	16	6	27
CRW_00672	Intron_gpI links to Rfam database...	0.76	0.78	0.74	87	72272	41	10	21	10	24
CRW_00674	Intron_gpI links to Rfam database...	0.68	0.67	0.70	83	83317	41	8	28	5	41
CRW_00676	Intron_gpI links to Rfam database...	0.59	0.58	0.60	67	93416	63	8	37	18	48
CRW_00685	-	0.37	0.40	0.35	42	156960	118	16	62	40	64
CRW_00688	-	0.87	0.86	0.89	49	21890	13	0	6	7	8
CRW_00721	-	0.60	0.63	0.57	43	58577	62	10	23	29	25
PDB_00078	-	0.74	0.70	0.78	80	49668	24	6	16	2	35
PDB_00278	-	0.14	0.14	0.14	10	24904	62	6	56	0	62
PDB_00571	tRNA links to Rfam database...	0.60	0.60	0.60	15	3296	10	6	4	0	10
PDB_00701	-	0.10	0.10	0.10	11	45342	98	9	89	0	98
PDB_00828	Purine links to Rfam database...	0.86	0.78	0.95	21	2463	1	0	1	0	6
PDB_00851	-	0.45	0.39	0.53	16	4723	14	0	14	0	25
PDB_00917	-	0.52	0.46	0.58	44	35169	39	4	28	7	51
PDB_01009	tRNA links to Rfam database...	0.54	0.57	0.52	12	2462	12	5	6	1	9
RFA_00770	Corona_pk3 links to Rfam database...	0.59	0.56	0.63	10	2000	9	0	6	3	8
RFA_00773	Corona_pk3 links to Rfam database...	0.55	0.56	0.56	10	1935	8	3	5	0	8
RFA_00808	RydC links to Rfam database...	0.65	0.56	0.75	9	2004	3	0	3	0	7
TMR_00036	tmRNA links to Rfam database...	0.56	0.54	0.59	55	90431	67	9	30	28	46
TMR_00123	tmRNA links to Rfam database...	0.46	0.48	0.45	48	66324	63	13	45	5	53
TMR_00180	tmRNA links to Rfam database...	0.63	0.64	0.62	63	67059	54	8	31	15	36
TMR_00240	tmRNA links to Rfam database...	0.57	0.61	0.54	52	63093	51	21	24	6	33
TMR_00352	tmRNA links to Rfam database...	0.35	0.40	0.31	30	95170	99	22	44	33	45
TMR_00353	tmRNA links to Rfam database...	0.42	0.47	0.39	49	84128	98	21	57	20	56
TMR_00357	tmRNA links to Rfam database...	0.38	0.37	0.38	34	82939	75	16	39	20	58
TMR_00361	-	0.30	0.38	0.23	27	93413	106	34	54	18	45
TMR_00374	tmRNA links to Rfam database...	0.25	0.26	0.24	24	81711	90	17	58	15	68
TMR_00384	tmRNA links to Rfam database...	0.29	0.29	0.30	31	65599	79	4	69	6	77
TMR_00395	tmRNA links to Rfam database...	0.52	0.50	0.56	54	64523	47	6	37	4	55
TMR_00398	tmRNA links to Rfam database...	0.44	0.43	0.44	46	65236	63	7	52	4	60
TMR_00399	tmRNA links to Rfam database...	0.35	0.34	0.36	32	64891	64	12	45	7	62
TMR_00430	tmRNA links to Rfam database...	0.23	0.23	0.22	25	82509	87	17	70	0	84
TMR_00431	tmRNA links to Rfam database...	0.67	0.69	0.64	38	51944	69	7	14	48	17
TMR_00443	tmRNA links to Rfam database...	0.50	0.48	0.53	50	67066	52	13	32	7	54
TMR_00457	tmRNA links to Rfam database...	0.43	0.44	0.43	45	78501	65	18	42	5	57
TMR_00469	tmRNA links to Rfam database...	0.51	0.53	0.50	53	64514	57	18	35	4	47
TMR_00502	tmRNA links to Rfam database...	0.22	0.24	0.20	22	75355	100	18	71	11	71
TMR_00503	tmRNA links to Rfam database...	0.42	0.41	0.43	46	67788	69	5	57	7	65
TMR_00519	tmRNA links to Rfam database...	0.40	0.38	0.42	36	63105	64	10	39	15	59
TMR_00528	tmRNA links to Rfam database...	0.30	0.29	0.31	28	63099	73	18	45	10	69
TMR_00541	tmRNA links to Rfam database...	0.40	0.41	0.38	43	61664	79	8	61	10	62
TMR_00547	tmRNA links to Rfam database...	0.39	0.40	0.38	40	65236	68	5	60	3	60
TMR_00562	tmRNA links to Rfam database...	0.35	0.34	0.36	35	72674	71	15	47	9	67
TMR_00566	tmRNA links to Rfam database...	0.64	0.61	0.67	61	60635	39	4	26	9	39
TMR_00571	tmRNA links to Rfam database...	0.62	0.61	0.64	60	60632	46	6	28	12	39
TMR_00584	tmRNA links to Rfam database...	0.58	0.57	0.59	55	60982	53	5	33	15	42
TMR_00594	tmRNA links to Rfam database...	0.16	0.17	0.15	18	79278	111	26	79	6	86
TMR_00605	tmRNA links to Rfam database...	0.54	0.52	0.55	56	74204	51	14	31	6	52
TMR_00609	tmRNA links to Rfam database...	0.69	0.68	0.70	77	63436	41	5	28	8	36
TMR_00624	tmRNA links to Rfam database...	0.68	0.69	0.67	75	62369	48	9	28	11	33
TMR_00683	tmRNA links to Rfam database...	0.16	0.18	0.14	18	82900	118	25	85	8	82
TMR_00698	tmRNA links to Rfam database...	0.48	0.45	0.51	47	63098	48	12	33	3	57
TMR_00703	tmRNA links to Rfam database...	0.48	0.47	0.48	47	67430	56	11	40	5	52
TMR_00706	tmRNA links to Rfam database...	0.57	0.52	0.61	54	66342	38	7	27	4	49
TMR_00711	tmRNA links to Rfam database...	0.61	0.62	0.60	61	67795	51	14	26	11	37

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Performance of NanoFolder - scored lower in this pairwise comparison

1. Total counts & total scores for NanoFolder

Total Base Pair Counts
Total TP	2258
Total TN	6805326
Total FP	13384
Total FP CONTRA	2402
Total FP INCONS	10499
Total FP COMP	483
Total FN	8674

Total Scores
MCC	0.174
Average MCC ± 95% Confidence Intervals	0.183 ± 0.028
Sensitivity	0.207
Positive Predictive Value	0.149
Nr of predictions	112

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2. Individual counts for NanoFolder [ download as .csv ]

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
ASE_00017	RNaseP_nuc links to Rfam database...	0.02	0.03	0.02	2	50914	131	38	86	7	62
ASE_00083	RNaseP_bact_a links to Rfam database...	0.22	0.25	0.20	27	62347	108	12	95	1	83
ASE_00122	RNaseP_bact_a links to Rfam database...	0.27	0.30	0.24	26	43258	84	13	68	3	62
ASE_00185	RNaseP_bact_a links to Rfam database...	0.17	0.19	0.16	24	73382	134	14	116	4	104
ASE_00190	RNaseP_bact_b links to Rfam database...	0.24	0.28	0.21	25	45334	93	14	78	1	65
ASE_00196	RNaseP_arch links to Rfam database...	0.49	0.57	0.42	43	31524	62	16	43	3	32
ASE_00221	RNaseP_bact_a links to Rfam database...	0.20	0.21	0.18	25	64484	112	10	101	1	92
ASE_00227	RNaseP_bact_a links to Rfam database...	0.28	0.31	0.25	41	78840	122	20	102	0	92
ASE_00228	RNaseP_bact_a links to Rfam database...	0.05	0.06	0.04	5	46858	109	17	91	1	81
ASE_00229	RNaseP_bact_a links to Rfam database...	0.12	0.14	0.11	12	42380	97	12	82	3	75
ASE_00231	RNaseP_bact_a links to Rfam database...	0.37	0.42	0.33	40	47773	84	17	65	2	56
ASE_00234	RNaseP_bact_a links to Rfam database...	0.25	0.27	0.23	35	75315	117	10	106	1	94
ASE_00238	RNaseP_bact_a links to Rfam database...	0.26	0.30	0.23	34	64111	119	18	98	3	80
ASE_00248	RNaseP_bact_a links to Rfam database...	0.13	0.15	0.12	17	62340	124	9	115	0	97
ASE_00250	RNaseP_bact_a links to Rfam database...	0.25	0.29	0.23	38	78835	135	17	113	5	93
ASE_00254	RNaseP_bact_a links to Rfam database...	0.15	0.16	0.14	13	36761	88	3	79	6	69
ASE_00255	RNaseP_bact_a links to Rfam database...	0.11	0.12	0.10	16	74530	146	16	129	1	114
ASE_00257	RNaseP_bact_a links to Rfam database...	0.37	0.42	0.33	41	50917	85	15	67	3	56
ASE_00267	RNaseP_bact_a links to Rfam database...	0.00	0.00	0.00	0	45036	115	9	105	1	88
ASE_00270	RNaseP_bact_a links to Rfam database...	0.19	0.21	0.17	27	72232	132	14	117	1	101
ASE_00274	RNaseP_bact_a links to Rfam database...	0.00	0.00	0.00	0	55487	126	12	112	2	103
ASE_00277	RNaseP_bact_a links to Rfam database...	0.10	0.12	0.08	11	48071	123	23	100	0	80
ASE_00279	RNaseP_bact_a links to Rfam database...	0.14	0.16	0.13	16	53177	109	16	92	1	85
ASE_00285	RNaseP_bact_a links to Rfam database...	0.34	0.36	0.31	44	68866	98	14	82	2	78
ASE_00287	RNaseP_bact_a links to Rfam database...	0.15	0.17	0.14	17	54824	107	14	91	2	86
ASE_00294	RNaseP_bact_a links to Rfam database...	0.12	0.13	0.12	23	114287	172	11	160	1	148
ASE_00295	RNaseP_bact_a links to Rfam database...	0.14	0.16	0.13	21	73761	140	19	119	2	110
ASE_00298	RNaseP_bact_a links to Rfam database...	0.09	0.10	0.08	11	67389	129	8	120	1	102
ASE_00318	RNaseP_bact_b links to Rfam database...	0.03	0.04	0.03	5	80039	156	21	135	0	113
ASE_00335	RNaseP_bact_b links to Rfam database...	0.10	0.12	0.09	14	75304	151	22	126	3	102
ASE_00339	RNaseP_bact_a links to Rfam database...	0.25	0.29	0.22	34	80042	129	20	104	5	85
ASE_00340	RNaseP_bact_a links to Rfam database...	0.06	0.07	0.05	6	45943	110	13	94	3	79
ASE_00343	RNaseP_bact_a links to Rfam database...	0.14	0.17	0.12	19	83275	145	31	111	3	94
ASE_00367	RNaseP_bact_a links to Rfam database...	0.08	0.09	0.07	8	42960	110	10	93	7	78
ASE_00370	RNaseP_bact_a links to Rfam database...	0.03	0.04	0.03	3	41796	109	18	88	3	81
ASE_00372	RNaseP_bact_a links to Rfam database...	0.17	0.20	0.15	20	51871	113	19	93	1	80
ASE_00375	RNaseP_bact_a links to Rfam database...	0.12	0.14	0.11	15	60246	120	10	107	3	95
ASE_00376	RNaseP_bact_a links to Rfam database...	0.00	0.00	0.00	0	56822	136	9	122	5	105
ASE_00377	RNaseP_bact_a links to Rfam database...	0.25	0.27	0.23	29	57505	98	10	86	2	78
ASE_00386	RNaseP_bact_a links to Rfam database...	0.14	0.16	0.13	15	50284	106	9	95	2	81
ASE_00393	RNaseP_bact_a links to Rfam database...	0.31	0.35	0.27	33	47773	90	18	71	1	60
ASE_00412	RNaseP_bact_a links to Rfam database...	0.15	0.17	0.14	18	58183	111	14	96	1	87
ASE_00413	RNaseP_bact_a links to Rfam database...	0.08	0.10	0.07	8	44438	108	19	86	3	73
ASE_00416	RNaseP_bact_a links to Rfam database...	0.39	0.43	0.35	54	77267	103	18	82	3	73
ASE_00417	RNaseP_arch links to Rfam database...	0.32	0.36	0.28	36	54486	98	18	75	5	64
ASE_00422	RNaseP_bact_a links to Rfam database...	0.28	0.31	0.25	29	46856	87	9	77	1	65
ASE_00428	RNaseP_bact_a links to Rfam database...	0.24	0.26	0.22	33	76483	121	13	107	1	92
ASE_00429	-	0.08	0.09	0.07	6	28114	84	14	69	1	60
ASE_00430	RNaseP_bact_a links to Rfam database...	0.16	0.18	0.14	17	46852	102	10	92	0	80
ASE_00434	RNaseP_bact_b links to Rfam database...	0.29	0.34	0.25	37	68116	122	20	92	10	73
ASE_00437	RNaseP_bact_a links to Rfam database...	0.00	0.00	0.00	0	79238	164	12	151	1	135
ASE_00451	RNaseP_bact_a links to Rfam database...	0.20	0.22	0.19	27	70731	118	8	110	0	98
CRW_00648	-	0.05	0.06	0.04	9	137864	213	24	178	11	139
CRW_00654	-	0.41	0.47	0.36	58	78049	105	18	85	2	66
CRW_00658	-	0.21	0.26	0.16	27	74527	137	28	109	0	75
CRW_00663	-	0.08	0.10	0.07	6	26014	90	17	69	4	55
CRW_00664	-	0.14	0.19	0.11	15	53486	134	42	85	7	63
CRW_00671	Intron_gpI links to Rfam database...	0.18	0.21	0.16	24	62682	130	23	106	1	93
CRW_00672	Intron_gpI links to Rfam database...	0.36	0.43	0.31	48	72233	114	35	74	5	63
CRW_00674	Intron_gpI links to Rfam database...	0.16	0.19	0.14	23	83274	142	19	120	3	101
CRW_00676	Intron_gpI links to Rfam database...	0.11	0.14	0.09	16	93347	169	29	136	4	99
CRW_00685	-	0.11	0.15	0.08	16	156867	212	64	133	15	90
CRW_00688	-	0.33	0.40	0.27	23	21859	64	21	42	1	34
CRW_00721	-	0.22	0.31	0.15	21	58515	133	46	71	16	47
PDB_00078	-	0.00	0.00	0.00	0	49644	126	10	116	0	115
PDB_00278	-	0.04	0.06	0.04	4	24875	98	13	84	1	68
PDB_00571	tRNA links to Rfam database...	-0.01	0.00	0.00	0	3286	36	6	29	1	25
PDB_00701	-	0.04	0.05	0.04	5	45319	127	14	113	0	104
PDB_00828	Purine links to Rfam database...	0.30	0.33	0.28	9	2453	23	0	23	0	18
PDB_00851	-	0.16	0.17	0.17	7	4711	35	3	32	0	34
PDB_00917	-	0.31	0.34	0.29	32	35136	81	10	67	4	63
PDB_01009	tRNA links to Rfam database...	0.27	0.33	0.23	7	2455	25	3	20	2	14
RFA_00770	Corona_pk3 links to Rfam database...	-0.01	0.00	0.00	0	1996	24	0	20	4	18
RFA_00773	Corona_pk3 links to Rfam database...	0.93	1.00	0.86	18	1932	9	3	0	6	0
RFA_00808	RydC links to Rfam database...	0.83	1.00	0.70	16	1993	7	7	0	0	0
TMR_00036	tmRNA links to Rfam database...	0.22	0.29	0.17	29	90359	153	37	100	16	72
TMR_00123	tmRNA links to Rfam database...	0.19	0.23	0.16	23	66283	126	20	104	2	78
TMR_00180	tmRNA links to Rfam database...	0.12	0.16	0.10	16	66999	149	35	111	3	83
TMR_00240	tmRNA links to Rfam database...	0.23	0.31	0.17	26	63041	128	39	84	5	59
TMR_00352	tmRNA links to Rfam database...	0.07	0.09	0.05	7	95133	171	39	87	45	68
TMR_00353	tmRNA links to Rfam database...	0.41	0.51	0.32	54	84087	127	49	65	13	51
TMR_00357	tmRNA links to Rfam database...	0.26	0.34	0.19	31	82869	146	44	84	18	61
TMR_00361	-	0.06	0.10	0.04	7	93368	174	64	89	21	65
TMR_00374	tmRNA links to Rfam database...	0.09	0.13	0.07	12	81631	174	44	123	7	80
TMR_00384	tmRNA links to Rfam database...	0.17	0.20	0.14	22	65550	133	26	105	2	86
TMR_00395	tmRNA links to Rfam database...	0.27	0.31	0.24	34	64478	115	10	98	7	75
TMR_00398	tmRNA links to Rfam database...	0.05	0.07	0.05	7	65197	139	24	113	2	99
TMR_00399	tmRNA links to Rfam database...	0.20	0.26	0.16	24	64833	130	38	85	7	70
TMR_00430	tmRNA links to Rfam database...	0.18	0.23	0.15	25	82450	148	34	112	2	84
TMR_00431	tmRNA links to Rfam database...	0.24	0.33	0.17	18	51899	127	26	60	41	37
TMR_00443	tmRNA links to Rfam database...	0.17	0.20	0.15	21	67018	126	24	98	4	83
TMR_00457	tmRNA links to Rfam database...	0.19	0.25	0.15	25	78443	141	39	99	3	77
TMR_00469	tmRNA links to Rfam database...	0.10	0.12	0.08	12	64469	145	27	112	6	88
TMR_00502	tmRNA links to Rfam database...	0.14	0.19	0.11	18	75303	150	45	100	5	75
TMR_00503	tmRNA links to Rfam database...	0.11	0.14	0.10	15	67741	141	20	120	1	96
TMR_00519	tmRNA links to Rfam database...	0.04	0.05	0.03	5	63046	141	33	106	2	90
TMR_00528	tmRNA links to Rfam database...	0.13	0.15	0.11	15	63051	131	20	104	7	82
TMR_00541	tmRNA links to Rfam database...	0.12	0.14	0.10	15	61630	139	22	109	8	90
TMR_00547	tmRNA links to Rfam database...	0.28	0.35	0.23	35	65188	122	37	81	4	65
TMR_00562	tmRNA links to Rfam database...	0.09	0.12	0.08	12	72617	147	27	115	5	90
TMR_00566	tmRNA links to Rfam database...	0.13	0.16	0.11	16	60582	132	22	106	4	84
TMR_00571	tmRNA links to Rfam database...	0.05	0.06	0.04	6	60577	149	19	124	6	93
TMR_00584	tmRNA links to Rfam database...	0.01	0.01	0.01	1	60922	159	33	119	7	96
TMR_00594	tmRNA links to Rfam database...	0.08	0.10	0.06	10	79238	156	30	123	3	94
TMR_00605	tmRNA links to Rfam database...	0.28	0.35	0.23	38	74141	129	36	90	3	70
TMR_00609	tmRNA links to Rfam database...	0.53	0.62	0.45	70	63391	89	28	57	4	43
TMR_00624	tmRNA links to Rfam database...	0.36	0.44	0.30	47	62325	111	27	82	2	61
TMR_00683	tmRNA links to Rfam database...	0.01	0.02	0.01	2	82854	176	50	122	4	98
TMR_00698	tmRNA links to Rfam database...	0.20	0.24	0.17	25	63042	124	27	96	1	79
TMR_00703	tmRNA links to Rfam database...	0.10	0.12	0.08	12	67376	140	26	114	0	87
TMR_00706	tmRNA links to Rfam database...	0.14	0.17	0.11	17	66281	133	29	103	1	86
TMR_00711	tmRNA links to Rfam database...	0.18	0.22	0.14	22	67740	137	41	93	3	76

^top

Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based on the paper by Gardener & Giegerich, 2004.

Table of contents:

Overview

Performance plots

Performance of ProbKnot - scored higher in this pairwise comparison

1. Total counts & total scores for ProbKnot

2. Individual counts for ProbKnot [ download as .csv ]

Performance of NanoFolder - scored lower in this pairwise comparison

1. Total counts & total scores for NanoFolder

2. Individual counts for NanoFolder [ download as .csv ]