CompaRNA - on-line benchmarks of RNA structure prediction methods

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Metric	Afold		Multilign(20)
MCC	0.630	>	0.573
Average MCC ± 95% Confidence Intervals	0.680 ± 0.346	>	0.562 ± 0.446
Sensitivity	0.633	>	0.531
Positive Predictive Value	0.637	>	0.629
Total TP	93	>	78
Total TN	10906	<	10928
Total FP	76	>	61
Total FP CONTRA	12	>	11
Total FP INCONS	41	>	35
Total FP COMP	23	>	15
Total FN	54	<	69
P-value	0.0

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

Total Scores
MCC	0.630
Average MCC ± 95% Confidence Intervals	0.680 ± 0.346
Sensitivity	0.633
Positive Predictive Value	0.637
Nr of predictions	6

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...	0.35	0.34	0.38	12	2013	21	1	19	1	23
3RKF_A	Purine links to Rfam database...	0.91	0.83	1.00	20	846	0	0	0	0	4
3ZEX_D	5S_rRNA links to Rfam database...	0.82	0.77	0.87	27	2765	8	0	4	4	8
4A1C_2	5_8S_rRNA links to Rfam database...	0.19	0.25	0.15	5	4483	43	11	17	15	15
4ENB_A	crcB links to Rfam database...	0.81	0.73	0.92	11	460	3	0	1	2	4

Total Scores
MCC	0.573
Average MCC ± 95% Confidence Intervals	0.562 ± 0.446
Sensitivity	0.531
Positive Predictive Value	0.629
Nr of predictions	6

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
3ZEX_D	5S_rRNA links to Rfam database...	0.88	0.83	0.94	29	2765	8	0	2	6	6
4A1C_2	5_8S_rRNA links to Rfam database...	0.20	0.25	0.16	5	4485	33	9	17	7	15
4ENB_A	crcB links to Rfam database...	0.39	0.33	0.50	5	462	6	0	5	1	10

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