CompaRNA - on-line benchmarks of RNA structure prediction methods

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Metric	Murlet(seed)		Multilign(20)
MCC	0.530	>	0.500
Average MCC ± 95% Confidence Intervals	0.541 ± 0.123	>	0.513 ± 0.273
Sensitivity	0.344	<	0.464
Positive Predictive Value	0.828	>	0.554
Total TP	72	<	97
Total TN	12837	>	12749
Total FP	17	<	88
Total FP CONTRA	1	<	21
Total FP INCONS	14	<	57
Total FP COMP	2	<	10
Total FN	137	>	112
P-value	0.0

Comparison of performance of Murlet(seed) and Multilign(20). 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 Murlet(seed) and Multilign(20)).
Comparison of performance of Murlet(seed) and Multilign(20). 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 Murlet(seed) and Multilign(20)).
Comparison of average Matthews Correlation Coefficients (MCCs) for Murlet(seed) and Multilign(20). 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 Murlet(seed) and Multilign(20)).
Comparison of average Matthews Correlation Coefficients (MCCs) for Murlet(seed) and Multilign(20). 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 Murlet(seed) and Multilign(20)).

Total Scores
MCC	0.530
Average MCC ± 95% Confidence Intervals	0.541 ± 0.123
Sensitivity	0.344
Positive Predictive Value	0.828
Nr of predictions	9

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
2L94_A	HIV_FE links to Rfam database...	0.57	0.39	0.88	7	349	2	0	1	1	11
2XXA_G	Bacteria_small_SRP links to Rfam database...	0.41	0.17	1.00	6	2039	0	0	0	0	29
3RKF_A	Purine links to Rfam database...	0.62	0.50	0.80	12	851	3	1	2	0	12
3SD1_A	THF links to Rfam database...	0.56	0.38	0.85	11	1520	2	0	2	0	18
4A1C_2	5_8S_rRNA links to Rfam database...	0.59	0.35	1.00	7	4509	0	0	0	0	13
4AOB_A	SAM links to Rfam database...	0.69	0.48	1.00	14	1423	1	0	0	1	15
4ENB_A	crcB links to Rfam database...	0.63	0.40	1.00	6	466	0	0	0	0	9
4ENC_A	crcB links to Rfam database...	0.63	0.40	1.00	6	490	0	0	0	0	9
4FRG_B	AdoCbl-variant links to Rfam database...	0.17	0.13	0.25	3	1190	9	0	9	0	21

Total Scores
MCC	0.500
Average MCC ± 95% Confidence Intervals	0.513 ± 0.273
Sensitivity	0.464
Positive Predictive Value	0.554
Nr of predictions	9

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
2L94_A	HIV_FE links to Rfam database...	1.00	1.00	1.00	18	339	1	0	0	1	0
2XXA_G	Bacteria_small_SRP links to Rfam database...	-0.01	0.00	0.00	0	2033	12	2	10	0	35
3RKF_A	Purine links to Rfam database...	0.91	0.88	0.95	21	844	1	0	1	0	3
3SD1_A	THF links to Rfam database...	0.68	0.69	0.69	20	1504	9	4	5	0	9
4A1C_2	5_8S_rRNA links to Rfam database...	0.20	0.25	0.16	5	4485	33	9	17	7	15
4AOB_A	SAM links to Rfam database...	0.59	0.55	0.64	16	1412	10	3	6	1	13
4ENB_A	crcB links to Rfam database...	0.39	0.33	0.50	5	462	6	0	5	1	10
4ENC_A	crcB links to Rfam database...	0.73	0.60	0.90	9	486	1	1	0	0	6
4FRG_B	AdoCbl-variant links to Rfam database...	0.13	0.13	0.17	3	1184	15	2	13	0	21

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