CompaRNA - on-line benchmarks of RNA structure prediction methods

Laboratory of Structural Bioinformatics @ Adam Mickiewicz University in Poznan

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Overview

Metric	CentroidAlifold(20)		Murlet(20)
MCC	0.719	>	0.566
Average MCC ± 95% Confidence Intervals	0.720 ± 0.015	>	0.559 ± 0.021
Sensitivity	0.578	>	0.445
Positive Predictive Value	0.894	>	0.722
Total TP	11345	>	8722
Total TN	21474221	<	21474826
Total FP	1743	<	3823
Total FP CONTRA	279	<	484
Total FP INCONS	1063	<	2876
Total FP COMP	401	<	463
Total FN	8267	<	10890
P-value	3.56938820447e-08

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Performance plots

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

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Performance of CentroidAlifold(20) - scored higher in this pairwise comparison

1. Total counts & total scores for CentroidAlifold(20)

Total Base Pair Counts
Total TP	11345
Total TN	21474221
Total FP	1743
Total FP CONTRA	279
Total FP INCONS	1063
Total FP COMP	401
Total FN	8267

Total Scores
MCC	0.719
Average MCC ± 95% Confidence Intervals	0.720 ± 0.015
Sensitivity	0.578
Positive Predictive Value	0.894
Nr of predictions	159

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2. Individual counts for CentroidAlifold(20) [ download as .csv ]

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
ASE_00004	RNaseP_bact_a links to Rfam database...	0.56	0.41	0.75	40	47842	13	0	13	0	57
ASE_00007	RNaseP_bact_a links to Rfam database...	0.84	0.73	0.96	80	59602	3	0	3	0	30
ASE_00018	RNaseP_bact_a links to Rfam database...	0.76	0.60	0.95	81	80516	4	1	3	0	53
ASE_00022	RNaseP_bact_b links to Rfam database...	0.79	0.63	1.00	78	82950	4	0	0	4	46
ASE_00028	RNaseP_bact_b links to Rfam database...	0.74	0.55	1.00	69	84597	3	0	0	3	57
ASE_00035	RNaseP_bact_a links to Rfam database...	0.71	0.55	0.93	65	70430	8	0	5	3	53
ASE_00040	RNaseP_bact_a links to Rfam database...	0.80	0.66	0.97	88	78912	5	0	3	2	45
ASE_00064	RNaseP_bact_a links to Rfam database...	0.79	0.65	0.97	58	45391	2	0	2	0	31
ASE_00068	RNaseP_bact_a links to Rfam database...	0.59	0.41	0.85	35	37634	6	0	6	0	50
ASE_00075	RNaseP_bact_a links to Rfam database...	0.56	0.35	0.89	57	108747	12	1	6	5	105
ASE_00077	RNaseP_bact_a links to Rfam database...	0.78	0.65	0.93	56	45090	4	1	3	0	30
ASE_00078	RNaseP_bact_a links to Rfam database...	0.84	0.71	1.00	59	43012	0	0	0	0	24
ASE_00080	RNaseP_bact_a links to Rfam database...	0.46	0.32	0.67	39	71573	19	1	18	0	84
ASE_00081	RNaseP_bact_a links to Rfam database...	0.77	0.60	0.98	58	49711	1	0	1	0	39
ASE_00082	RNaseP_bact_a links to Rfam database...	0.69	0.49	0.98	57	70442	7	0	1	6	59
ASE_00083	RNaseP_bact_a links to Rfam database...	0.73	0.55	0.98	60	62420	1	0	1	0	50
ASE_00084	RNaseP_bact_a links to Rfam database...	0.77	0.61	0.97	60	53566	2	1	1	0	39
ASE_00087	RNaseP_bact_a links to Rfam database...	0.61	0.39	0.97	56	88352	2	0	2	0	88
ASE_00092	RNaseP_bact_a links to Rfam database...	0.71	0.52	0.97	59	63485	2	1	1	0	54
ASE_00104	RNaseP_bact_a links to Rfam database...	0.79	0.64	0.97	76	64183	2	0	2	0	43
ASE_00107	RNaseP_bact_a links to Rfam database...	0.78	0.65	0.95	82	73067	4	0	4	0	45
ASE_00115	RNaseP_bact_a links to Rfam database...	0.77	0.60	0.98	61	54553	1	0	1	0	40
ASE_00119	RNaseP_bact_a links to Rfam database...	0.64	0.43	0.96	46	62787	2	1	1	0	62
ASE_00123	RNaseP_bact_a links to Rfam database...	0.75	0.60	0.94	51	38449	3	1	2	0	34
ASE_00135	RNaseP_bact_a links to Rfam database...	0.58	0.43	0.78	47	63130	13	0	13	0	62
ASE_00138	RNaseP_bact_a links to Rfam database...	0.82	0.69	0.98	56	40413	1	1	0	0	25
ASE_00142	RNaseP_bact_a links to Rfam database...	0.82	0.69	0.97	84	67074	5	0	3	2	38
ASE_00146	RNaseP_bact_a links to Rfam database...	0.81	0.68	0.97	84	70789	3	0	3	0	40
ASE_00153	RNaseP_nuc links to Rfam database...	0.34	0.26	0.45	19	57588	23	4	19	0	54
ASE_00163	RNaseP_bact_a links to Rfam database...	0.78	0.63	0.97	59	53240	2	1	1	0	34
ASE_00170	RNaseP_bact_a links to Rfam database...	0.75	0.62	0.91	58	48764	6	1	5	0	35
ASE_00174	RNaseP_bact_a links to Rfam database...	0.60	0.44	0.83	48	61017	10	1	9	0	61
ASE_00179	RNaseP_bact_a links to Rfam database...	0.74	0.60	0.93	50	44199	5	2	2	1	34
ASE_00180	RNaseP_bact_a links to Rfam database...	0.74	0.57	0.97	57	51301	2	1	1	0	43
ASE_00182	RNaseP_bact_a links to Rfam database...	0.62	0.41	0.93	56	84195	4	1	3	0	80
ASE_00184	RNaseP_bact_a links to Rfam database...	0.76	0.59	0.98	60	54554	1	0	1	0	42
ASE_00185	RNaseP_bact_a links to Rfam database...	0.63	0.41	0.96	53	73481	2	1	1	0	75
ASE_00186	RNaseP_bact_a links to Rfam database...	0.71	0.55	0.91	73	78923	10	0	7	3	59
ASE_00190	RNaseP_bact_b links to Rfam database...	0.75	0.56	1.00	50	45401	2	0	0	2	40
ASE_00212	RNaseP_bact_a links to Rfam database...	0.63	0.45	0.88	67	93885	10	0	9	1	81
ASE_00214	RNaseP_bact_a links to Rfam database...	0.72	0.54	0.97	56	56222	3	1	1	1	47
ASE_00215	RNaseP_bact_a links to Rfam database...	0.56	0.37	0.84	37	48472	7	0	7	0	62
ASE_00217	RNaseP_bact_a links to Rfam database...	0.82	0.69	0.98	62	40407	2	0	1	1	28
ASE_00221	RNaseP_bact_a links to Rfam database...	0.84	0.73	0.97	85	64532	3	0	3	0	32
ASE_00228	RNaseP_bact_a links to Rfam database...	0.74	0.62	0.88	53	46911	8	3	4	1	33
ASE_00229	RNaseP_bact_a links to Rfam database...	0.77	0.60	0.98	52	42433	3	0	1	2	35
ASE_00238	RNaseP_bact_a links to Rfam database...	0.55	0.40	0.75	46	64200	15	3	12	0	68
ASE_00241	RNaseP_bact_a links to Rfam database...	0.84	0.72	0.97	63	43891	2	0	2	0	24
ASE_00248	RNaseP_bact_a links to Rfam database...	0.84	0.72	0.99	82	62398	2	0	1	1	32
ASE_00255	RNaseP_bact_a links to Rfam database...	0.57	0.41	0.79	53	74624	14	0	14	0	77
ASE_00257	RNaseP_bact_a links to Rfam database...	0.66	0.51	0.86	49	50983	8	2	6	0	48
ASE_00267	RNaseP_bact_a links to Rfam database...	0.82	0.67	1.00	59	45091	1	0	0	1	29
ASE_00270	RNaseP_bact_a links to Rfam database...	0.56	0.35	0.90	45	72340	6	0	5	1	83
ASE_00279	RNaseP_bact_a links to Rfam database...	0.78	0.63	0.96	64	53234	3	0	3	0	37
ASE_00280	RNaseP_bact_a links to Rfam database...	0.76	0.59	0.97	58	51943	2	1	1	0	40
ASE_00281	RNaseP_bact_a links to Rfam database...	0.80	0.67	0.97	59	44490	2	0	2	0	29
ASE_00283	RNaseP_bact_a links to Rfam database...	0.72	0.54	0.97	58	61716	2	0	2	0	49
ASE_00285	RNaseP_bact_a links to Rfam database...	0.73	0.56	0.94	68	68934	4	2	2	0	54
ASE_00292	RNaseP_bact_a links to Rfam database...	0.80	0.65	0.98	90	81718	3	0	2	1	48
ASE_00294	RNaseP_bact_a links to Rfam database...	0.71	0.52	0.96	89	114388	5	0	4	1	82
ASE_00297	RNaseP_bact_a links to Rfam database...	0.59	0.43	0.82	42	52924	9	2	7	0	56
ASE_00298	RNaseP_bact_a links to Rfam database...	0.72	0.54	0.97	61	67465	2	1	1	0	52
ASE_00318	RNaseP_bact_b links to Rfam database...	0.79	0.63	0.99	74	80125	8	0	1	7	44
ASE_00328	RNaseP_bact_b links to Rfam database...	0.78	0.62	0.99	69	72701	6	0	1	5	43
ASE_00332	RNaseP_bact_a links to Rfam database...	0.71	0.54	0.94	74	81731	5	0	5	0	64
ASE_00335	RNaseP_bact_b links to Rfam database...	0.74	0.59	0.92	69	75391	13	0	6	7	47
ASE_00340	RNaseP_bact_a links to Rfam database...	0.75	0.61	0.93	52	46000	8	0	4	4	33
ASE_00353	RNaseP_bact_a links to Rfam database...	0.70	0.50	0.98	54	57915	2	1	0	1	53
ASE_00361	RNaseP_bact_a links to Rfam database...	0.65	0.42	1.00	53	75413	0	0	0	0	74
ASE_00362	RNaseP_bact_a links to Rfam database...	0.76	0.58	0.98	53	48151	2	0	1	1	38
ASE_00363	RNaseP_bact_a links to Rfam database...	0.71	0.56	0.88	53	51300	7	0	7	0	41
ASE_00364	RNaseP_bact_a links to Rfam database...	0.69	0.53	0.89	56	54222	7	1	6	0	49
ASE_00366	RNaseP_bact_a links to Rfam database...	0.72	0.58	0.89	57	58589	7	1	6	0	41
ASE_00367	RNaseP_bact_a links to Rfam database...	0.84	0.71	1.00	61	43010	1	0	0	1	25
ASE_00372	RNaseP_bact_a links to Rfam database...	0.75	0.57	0.98	57	51945	1	0	1	0	43
ASE_00376	RNaseP_bact_a links to Rfam database...	0.72	0.55	0.94	58	56891	4	0	4	0	47
ASE_00382	RNaseP_bact_a links to Rfam database...	0.85	0.73	0.98	61	41843	2	0	1	1	23
ASE_00384	RNaseP_bact_a links to Rfam database...	0.77	0.62	0.97	57	48457	2	1	1	0	35
ASE_00386	RNaseP_bact_a links to Rfam database...	0.74	0.56	0.98	54	50348	1	0	1	0	42
ASE_00387	RNaseP_bact_a links to Rfam database...	0.66	0.49	0.88	51	55887	7	0	7	0	53
ASE_00388	RNaseP_bact_a links to Rfam database...	0.78	0.62	0.98	55	45697	2	0	1	1	34
ASE_00390	RNaseP_bact_a links to Rfam database...	0.77	0.65	0.92	55	42135	5	2	3	0	30
ASE_00393	RNaseP_bact_a links to Rfam database...	0.72	0.58	0.90	54	47835	6	0	6	0	39
ASE_00394	RNaseP_bact_a links to Rfam database...	0.79	0.63	0.98	59	46911	1	0	1	0	34
ASE_00395	RNaseP_bact_a links to Rfam database...	0.76	0.63	0.91	53	41558	5	0	5	0	31
ASE_00396	RNaseP_bact_a links to Rfam database...	0.82	0.69	0.98	57	41558	1	0	1	0	26
ASE_00397	RNaseP_bact_a links to Rfam database...	0.74	0.54	1.00	57	54558	0	0	0	0	48
ASE_00398	RNaseP_bact_a links to Rfam database...	0.71	0.52	0.96	54	55889	2	0	2	0	50
ASE_00400	RNaseP_bact_a links to Rfam database...	0.77	0.60	0.98	64	57905	2	0	1	1	42
ASE_00402	RNaseP_bact_a links to Rfam database...	0.79	0.62	1.00	53	42433	0	0	0	0	32
ASE_00404	RNaseP_bact_a links to Rfam database...	0.80	0.66	0.98	56	43014	2	0	1	1	29
ASE_00406	RNaseP_bact_a links to Rfam database...	0.77	0.61	0.98	57	48770	1	0	1	0	37
ASE_00411	RNaseP_bact_a links to Rfam database...	0.65	0.54	0.77	48	49393	14	6	8	0	41
ASE_00412	RNaseP_bact_a links to Rfam database...	0.54	0.40	0.72	42	58253	16	2	14	0	63
ASE_00416	RNaseP_bact_a links to Rfam database...	0.73	0.58	0.93	74	77341	6	1	5	0	53
ASE_00419	RNaseP_bact_a links to Rfam database...	0.69	0.54	0.88	56	54882	8	3	5	0	47
ASE_00422	RNaseP_bact_a links to Rfam database...	0.69	0.56	0.84	53	46908	11	0	10	1	41
ASE_00423	RNaseP_bact_a links to Rfam database...	0.76	0.66	0.88	72	56871	11	0	10	1	37
ASE_00428	RNaseP_bact_a links to Rfam database...	0.76	0.64	0.90	80	76547	9	1	8	0	45
ASE_00430	RNaseP_bact_a links to Rfam database...	0.74	0.57	0.96	55	46914	2	0	2	0	42
ASE_00437	RNaseP_bact_a links to Rfam database...	0.56	0.46	0.68	62	79310	29	0	29	0	73
ASE_00448	RNaseP_bact_a links to Rfam database...	0.81	0.71	0.94	79	64177	5	0	5	0	33
ASE_00451	RNaseP_bact_a links to Rfam database...	0.79	0.66	0.95	82	70790	4	0	4	0	43
CRW_00177	SSU_rRNA_bacteria links to Rfam database...	0.83	0.75	0.92	356	1178493	48	7	24	17	117
CRW_00250	SSU_rRNA_bacteria links to Rfam database...	0.84	0.77	0.92	370	1198524	46	11	21	14	108
CRW_00278	SSU_rRNA_bacteria links to Rfam database...	0.84	0.78	0.91	351	1129869	54	7	29	18	99
CRW_00280	SSU_rRNA_bacteria links to Rfam database...	0.84	0.79	0.89	357	1117860	63	9	34	20	96
CRW_00330	SSU_rRNA_eukarya links to Rfam database...	0.51	0.37	0.71	190	1988747	113	10	68	35	327
CRW_00411	SSU_rRNA_eukarya links to Rfam database...	0.51	0.38	0.68	189	1615224	117	8	82	27	307
CRW_00414	SSU_rRNA_eukarya links to Rfam database...	0.48	0.34	0.67	170	1665972	109	11	72	26	325
CRW_00789	SSU_rRNA_bacteria links to Rfam database...	0.83	0.76	0.91	340	1137411	63	5	30	28	107
PDB_00571	tRNA links to Rfam database...	0.87	0.80	0.95	20	3300	1	1	0	0	5
PDB_00828	Purine links to Rfam database...	0.88	0.78	1.00	21	2464	0	0	0	0	6
PDB_00829	Purine links to Rfam database...	0.86	0.75	1.00	18	2260	0	0	0	0	6
PDB_01020	Purine links to Rfam database...	0.86	0.74	1.00	17	2261	1	0	0	1	6
PDB_01073	SAM links to Rfam database...	0.84	0.71	1.00	24	4347	1	0	0	1	10
PDB_01105	SSU_rRNA_bacteria links to Rfam database...	0.78	0.66	0.92	359	1433581	59	2	29	28	181
RFA_00599	Telomerase-vert links to Rfam database...	0.89	0.83	0.96	92	101379	9	1	3	5	19
RFA_00601	Telomerase-vert links to Rfam database...	0.90	0.86	0.93	98	99130	13	1	6	6	16
RFA_00602	Telomerase-vert links to Rfam database...	0.87	0.84	0.91	97	101368	18	1	9	8	19
TMR_00017	tmRNA links to Rfam database...	0.80	0.65	0.99	66	67094	1	0	1	0	36
TMR_00018	tmRNA links to Rfam database...	0.65	0.54	0.78	50	64556	15	5	9	1	42
TMR_00038	tmRNA links to Rfam database...	0.68	0.56	0.82	62	71177	15	5	9	1	48
TMR_00042	tmRNA links to Rfam database...	0.66	0.53	0.83	52	62772	12	4	7	1	46
TMR_00046	tmRNA links to Rfam database...	0.53	0.45	0.63	43	62767	26	4	21	1	53
TMR_00048	tmRNA links to Rfam database...	0.66	0.53	0.82	50	64919	12	7	4	1	45
TMR_00080	tmRNA links to Rfam database...	0.63	0.52	0.77	50	70435	15	8	7	0	46
TMR_00082	tmRNA links to Rfam database...	0.66	0.56	0.78	54	67827	18	7	8	3	42
TMR_00123	tmRNA links to Rfam database...	0.79	0.64	0.97	65	66363	3	1	1	1	36
TMR_00137	tmRNA links to Rfam database...	0.68	0.55	0.83	49	61016	13	6	4	3	40
TMR_00142	tmRNA links to Rfam database...	0.65	0.46	0.92	47	70825	11	0	4	7	55
TMR_00207	tmRNA links to Rfam database...	0.74	0.57	0.97	59	72329	4	1	1	2	44
TMR_00257	tmRNA links to Rfam database...	0.78	0.64	0.94	63	67094	4	4	0	0	35
TMR_00271	tmRNA links to Rfam database...	0.55	0.44	0.68	40	64202	24	6	13	5	51
TMR_00332	tmRNA links to Rfam database...	0.67	0.48	0.92	48	67109	5	1	3	1	51
TMR_00366	tmRNA links to Rfam database...	0.70	0.49	1.00	49	67847	7	0	0	7	51
TMR_00378	tmRNA links to Rfam database...	0.63	0.46	0.87	45	67844	15	1	6	8	52
TMR_00399	tmRNA links to Rfam database...	0.60	0.49	0.74	46	64918	16	6	10	0	48
TMR_00404	tmRNA links to Rfam database...	0.60	0.50	0.72	46	67464	21	3	15	3	46
TMR_00427	tmRNA links to Rfam database...	0.63	0.45	0.86	44	67477	8	7	0	1	53
TMR_00443	tmRNA links to Rfam database...	0.73	0.58	0.92	60	67096	6	0	5	1	44
TMR_00451	tmRNA links to Rfam database...	0.63	0.55	0.73	49	63479	20	10	8	2	40
TMR_00458	tmRNA links to Rfam database...	0.65	0.54	0.79	50	63483	15	6	7	2	43
TMR_00469	tmRNA links to Rfam database...	0.79	0.69	0.91	69	64544	10	6	1	3	31
TMR_00472	tmRNA links to Rfam database...	0.72	0.64	0.82	62	64544	15	7	7	1	35
TMR_00519	tmRNA links to Rfam database...	0.63	0.53	0.75	50	63123	19	5	12	2	45
TMR_00520	tmRNA links to Rfam database...	0.63	0.48	0.81	48	63131	13	3	8	2	51
TMR_00522	tmRNA links to Rfam database...	0.62	0.47	0.82	46	63134	15	4	6	5	51
TMR_00528	tmRNA links to Rfam database...	0.67	0.54	0.84	52	63128	15	4	6	5	45
TMR_00540	tmRNA links to Rfam database...	0.60	0.45	0.81	47	73478	11	4	7	0	57
TMR_00568	tmRNA links to Rfam database...	0.77	0.68	0.87	67	60649	15	1	9	5	32
TMR_00571	tmRNA links to Rfam database...	0.80	0.71	0.91	70	60649	12	1	6	5	29
TMR_00580	tmRNA links to Rfam database...	0.78	0.68	0.89	68	60650	13	2	6	5	32
TMR_00584	tmRNA links to Rfam database...	0.80	0.70	0.91	68	61000	10	3	4	3	29
TMR_00586	tmRNA links to Rfam database...	0.74	0.66	0.83	64	60998	18	6	7	5	33
TMR_00616	tmRNA links to Rfam database...	0.74	0.65	0.85	64	67086	12	7	4	1	35
TMR_00699	tmRNA links to Rfam database...	0.66	0.49	0.89	50	67105	6	1	5	0	52
TMR_00702	tmRNA links to Rfam database...	0.60	0.45	0.79	45	67104	12	2	10	0	55
TMR_00703	tmRNA links to Rfam database...	0.71	0.57	0.90	56	67466	6	2	4	0	43

^top

Performance of Murlet(20) - scored lower in this pairwise comparison

1. Total counts & total scores for Murlet(20)

Total Base Pair Counts
Total TP	8722
Total TN	21474826
Total FP	3823
Total FP CONTRA	484
Total FP INCONS	2876
Total FP COMP	463
Total FN	10890

Total Scores
MCC	0.566
Average MCC ± 95% Confidence Intervals	0.559 ± 0.021
Sensitivity	0.445
Positive Predictive Value	0.722
Nr of predictions	159

^top

2. Individual counts for Murlet(20) [ download as .csv ]

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
ASE_00004	RNaseP_bact_a links to Rfam database...	0.46	0.34	0.61	33	47841	21	1	20	0	64
ASE_00007	RNaseP_bact_a links to Rfam database...	0.71	0.57	0.89	63	59614	8	2	6	0	47
ASE_00018	RNaseP_bact_a links to Rfam database...	0.61	0.45	0.82	60	80528	13	3	10	0	74
ASE_00022	RNaseP_bact_b links to Rfam database...	0.67	0.50	0.89	62	82958	15	0	8	7	62
ASE_00028	RNaseP_bact_b links to Rfam database...	0.56	0.40	0.77	51	84600	15	5	10	0	75
ASE_00035	RNaseP_bact_a links to Rfam database...	0.62	0.49	0.79	58	70427	17	4	11	2	60
ASE_00040	RNaseP_bact_a links to Rfam database...	0.62	0.43	0.90	57	78940	6	0	6	0	76
ASE_00064	RNaseP_bact_a links to Rfam database...	0.55	0.39	0.76	35	45405	14	3	8	3	54
ASE_00068	RNaseP_bact_a links to Rfam database...	0.62	0.42	0.90	36	37635	4	3	1	0	49
ASE_00075	RNaseP_bact_a links to Rfam database...	0.51	0.34	0.76	55	108739	19	1	16	2	107
ASE_00077	RNaseP_bact_a links to Rfam database...	0.48	0.35	0.67	30	45105	18	0	15	3	56
ASE_00078	RNaseP_bact_a links to Rfam database...	0.64	0.53	0.79	44	43015	12	3	9	0	39
ASE_00080	RNaseP_bact_a links to Rfam database...	0.31	0.21	0.46	26	71574	31	3	28	0	97
ASE_00081	RNaseP_bact_a links to Rfam database...	0.73	0.58	0.93	56	49710	5	0	4	1	41
ASE_00082	RNaseP_bact_a links to Rfam database...	0.27	0.20	0.37	23	70438	42	2	37	3	93
ASE_00083	RNaseP_bact_a links to Rfam database...	0.54	0.39	0.75	43	62424	14	2	12	0	67
ASE_00084	RNaseP_bact_a links to Rfam database...	0.53	0.36	0.77	36	53581	12	0	11	1	63
ASE_00087	RNaseP_bact_a links to Rfam database...	0.35	0.21	0.58	30	88358	22	0	22	0	114
ASE_00092	RNaseP_bact_a links to Rfam database...	0.58	0.40	0.85	45	63493	10	0	8	2	68
ASE_00104	RNaseP_bact_a links to Rfam database...	0.51	0.38	0.69	45	64196	20	1	19	0	74
ASE_00107	RNaseP_bact_a links to Rfam database...	0.64	0.48	0.86	61	73082	13	2	8	3	66
ASE_00115	RNaseP_bact_a links to Rfam database...	0.46	0.30	0.71	30	54573	12	1	11	0	71
ASE_00119	RNaseP_bact_a links to Rfam database...	0.11	0.08	0.16	9	62779	48	2	45	1	99
ASE_00123	RNaseP_bact_a links to Rfam database...	0.55	0.40	0.76	34	38458	11	0	11	0	51
ASE_00135	RNaseP_bact_a links to Rfam database...	0.34	0.24	0.49	26	63137	29	3	24	2	83
ASE_00138	RNaseP_bact_a links to Rfam database...	0.60	0.47	0.76	38	40420	13	0	12	1	43
ASE_00142	RNaseP_bact_a links to Rfam database...	0.52	0.40	0.68	49	67089	23	1	22	0	73
ASE_00146	RNaseP_bact_a links to Rfam database...	0.70	0.56	0.87	69	70797	13	0	10	3	55
ASE_00153	RNaseP_nuc links to Rfam database...	0.34	0.23	0.50	17	57596	26	3	14	9	56
ASE_00163	RNaseP_bact_a links to Rfam database...	0.47	0.32	0.70	30	53258	13	0	13	0	63
ASE_00170	RNaseP_bact_a links to Rfam database...	0.52	0.37	0.74	34	48782	12	0	12	0	59
ASE_00174	RNaseP_bact_a links to Rfam database...	0.30	0.23	0.39	25	61011	43	2	37	4	84
ASE_00179	RNaseP_bact_a links to Rfam database...	0.49	0.40	0.61	34	44197	22	0	22	0	50
ASE_00180	RNaseP_bact_a links to Rfam database...	0.70	0.55	0.90	55	51299	6	2	4	0	45
ASE_00182	RNaseP_bact_a links to Rfam database...	0.24	0.15	0.41	20	84206	31	1	28	2	116
ASE_00184	RNaseP_bact_a links to Rfam database...	0.58	0.42	0.80	43	54561	11	2	9	0	59
ASE_00185	RNaseP_bact_a links to Rfam database...	0.28	0.16	0.48	21	73492	23	0	23	0	107
ASE_00186	RNaseP_bact_a links to Rfam database...	0.61	0.45	0.84	59	78933	11	1	10	0	73
ASE_00190	RNaseP_bact_b links to Rfam database...	0.38	0.22	0.67	20	45421	12	0	10	2	70
ASE_00212	RNaseP_bact_a links to Rfam database...	0.55	0.39	0.78	58	93887	16	1	15	0	90
ASE_00214	RNaseP_bact_a links to Rfam database...	0.40	0.27	0.58	28	56232	21	1	19	1	75
ASE_00215	RNaseP_bact_a links to Rfam database...	0.46	0.31	0.69	31	48471	14	4	10	0	68
ASE_00217	RNaseP_bact_a links to Rfam database...	0.66	0.50	0.87	45	40418	7	1	6	0	45
ASE_00221	RNaseP_bact_a links to Rfam database...	0.58	0.44	0.78	51	64555	14	0	14	0	66
ASE_00228	RNaseP_bact_a links to Rfam database...	0.53	0.44	0.63	38	46911	23	1	21	1	48
ASE_00229	RNaseP_bact_a links to Rfam database...	0.61	0.48	0.76	42	42431	13	3	10	0	45
ASE_00238	RNaseP_bact_a links to Rfam database...	0.45	0.30	0.68	34	64211	16	2	14	0	80
ASE_00241	RNaseP_bact_a links to Rfam database...	0.66	0.55	0.79	48	43895	16	2	11	3	39
ASE_00248	RNaseP_bact_a links to Rfam database...	0.76	0.63	0.91	72	62402	7	0	7	0	42
ASE_00255	RNaseP_bact_a links to Rfam database...	0.53	0.39	0.72	51	74620	21	1	19	1	79
ASE_00257	RNaseP_bact_a links to Rfam database...	0.55	0.43	0.69	42	50979	19	0	19	0	55
ASE_00267	RNaseP_bact_a links to Rfam database...	0.76	0.61	0.95	54	45093	4	2	1	1	34
ASE_00270	RNaseP_bact_a links to Rfam database...	0.21	0.14	0.32	18	72333	41	0	39	2	110
ASE_00279	RNaseP_bact_a links to Rfam database...	0.63	0.48	0.84	48	53244	9	1	8	0	53
ASE_00280	RNaseP_bact_a links to Rfam database...	0.67	0.54	0.84	53	51940	10	3	7	0	45
ASE_00281	RNaseP_bact_a links to Rfam database...	0.74	0.60	0.91	53	44493	5	0	5	0	35
ASE_00283	RNaseP_bact_a links to Rfam database...	0.55	0.41	0.73	44	61716	16	0	16	0	63
ASE_00285	RNaseP_bact_a links to Rfam database...	0.45	0.33	0.62	40	68941	25	1	24	0	82
ASE_00292	RNaseP_bact_a links to Rfam database...	0.52	0.36	0.74	50	81742	18	1	17	0	88
ASE_00294	RNaseP_bact_a links to Rfam database...	0.55	0.37	0.83	63	114405	14	4	9	1	108
ASE_00297	RNaseP_bact_a links to Rfam database...	0.59	0.41	0.85	40	52928	10	0	7	3	58
ASE_00298	RNaseP_bact_a links to Rfam database...	0.22	0.15	0.32	17	67475	36	4	32	0	96
ASE_00318	RNaseP_bact_b links to Rfam database...	0.66	0.49	0.89	58	80135	16	2	5	9	60
ASE_00328	RNaseP_bact_b links to Rfam database...	0.59	0.48	0.72	54	72696	27	5	16	6	58
ASE_00332	RNaseP_bact_a links to Rfam database...	0.63	0.47	0.83	65	81732	13	2	11	0	73
ASE_00335	RNaseP_bact_b links to Rfam database...	0.60	0.48	0.76	56	75392	19	5	13	1	60
ASE_00340	RNaseP_bact_a links to Rfam database...	0.45	0.34	0.60	29	46008	22	3	16	3	56
ASE_00353	RNaseP_bact_a links to Rfam database...	0.50	0.35	0.71	37	57918	15	0	15	0	70
ASE_00361	RNaseP_bact_a links to Rfam database...	0.57	0.39	0.82	50	75405	11	1	10	0	77
ASE_00362	RNaseP_bact_a links to Rfam database...	0.56	0.38	0.81	35	48162	12	0	8	4	56
ASE_00363	RNaseP_bact_a links to Rfam database...	0.61	0.44	0.85	41	51312	7	0	7	0	53
ASE_00364	RNaseP_bact_a links to Rfam database...	0.58	0.38	0.89	40	54240	5	0	5	0	65
ASE_00366	RNaseP_bact_a links to Rfam database...	0.49	0.36	0.67	35	58601	19	0	17	2	63
ASE_00367	RNaseP_bact_a links to Rfam database...	0.71	0.57	0.89	49	43016	6	2	4	0	37
ASE_00372	RNaseP_bact_a links to Rfam database...	0.40	0.31	0.53	31	51944	28	3	25	0	69
ASE_00376	RNaseP_bact_a links to Rfam database...	0.57	0.40	0.82	42	56902	9	2	7	0	63
ASE_00382	RNaseP_bact_a links to Rfam database...	0.65	0.51	0.83	43	41853	9	2	7	0	41
ASE_00384	RNaseP_bact_a links to Rfam database...	0.59	0.43	0.80	40	48466	10	2	8	0	52
ASE_00386	RNaseP_bact_a links to Rfam database...	0.54	0.36	0.80	35	50359	9	1	8	0	61
ASE_00387	RNaseP_bact_a links to Rfam database...	0.64	0.45	0.90	47	55893	5	0	5	0	57
ASE_00388	RNaseP_bact_a links to Rfam database...	0.53	0.38	0.72	34	45706	16	1	12	3	55
ASE_00390	RNaseP_bact_a links to Rfam database...	0.77	0.64	0.93	54	42137	6	1	3	2	31
ASE_00393	RNaseP_bact_a links to Rfam database...	0.55	0.41	0.73	38	47843	15	3	11	1	55
ASE_00394	RNaseP_bact_a links to Rfam database...	0.56	0.41	0.78	38	46922	11	1	10	0	55
ASE_00395	RNaseP_bact_a links to Rfam database...	0.68	0.51	0.90	43	41568	5	0	5	0	41
ASE_00396	RNaseP_bact_a links to Rfam database...	0.62	0.47	0.81	39	41568	9	0	9	0	44
ASE_00397	RNaseP_bact_a links to Rfam database...	0.63	0.45	0.89	47	54562	9	1	5	3	58
ASE_00398	RNaseP_bact_a links to Rfam database...	0.49	0.32	0.75	33	55901	12	0	11	1	71
ASE_00400	RNaseP_bact_a links to Rfam database...	0.47	0.36	0.61	38	57908	25	3	21	1	68
ASE_00402	RNaseP_bact_a links to Rfam database...	0.55	0.35	0.86	30	42451	5	2	3	0	55
ASE_00404	RNaseP_bact_a links to Rfam database...	0.72	0.55	0.94	47	43021	4	0	3	1	38
ASE_00406	RNaseP_bact_a links to Rfam database...	0.60	0.44	0.84	41	48779	8	0	8	0	53
ASE_00411	RNaseP_bact_a links to Rfam database...	0.59	0.39	0.88	35	49415	5	0	5	0	54
ASE_00412	RNaseP_bact_a links to Rfam database...	0.51	0.32	0.79	34	58268	11	0	9	2	71
ASE_00416	RNaseP_bact_a links to Rfam database...	0.45	0.33	0.62	42	77353	26	1	25	0	85
ASE_00419	RNaseP_bact_a links to Rfam database...	0.49	0.33	0.74	34	54900	12	2	10	0	69
ASE_00422	RNaseP_bact_a links to Rfam database...	0.50	0.35	0.70	33	46924	14	0	14	0	61
ASE_00423	RNaseP_bact_a links to Rfam database...	0.65	0.53	0.79	58	56880	15	0	15	0	51
ASE_00428	RNaseP_bact_a links to Rfam database...	0.47	0.34	0.67	42	76573	21	4	17	0	83
ASE_00430	RNaseP_bact_a links to Rfam database...	0.50	0.37	0.68	36	46918	17	0	17	0	61
ASE_00437	RNaseP_bact_a links to Rfam database...	0.42	0.32	0.56	43	79324	34	3	31	0	92
ASE_00448	RNaseP_bact_a links to Rfam database...	0.63	0.49	0.82	55	64194	12	3	9	0	57
ASE_00451	RNaseP_bact_a links to Rfam database...	0.56	0.41	0.76	51	70809	16	1	15	0	74
CRW_00177	SSU_rRNA_bacteria links to Rfam database...	0.75	0.70	0.81	330	1178473	93	14	63	16	143
CRW_00250	SSU_rRNA_bacteria links to Rfam database...	0.75	0.68	0.84	325	1198537	73	14	50	9	153
CRW_00278	SSU_rRNA_bacteria links to Rfam database...	0.75	0.67	0.83	302	1129893	75	12	49	14	148
CRW_00280	SSU_rRNA_bacteria links to Rfam database...	0.78	0.72	0.85	328	1117874	75	11	47	17	125
CRW_00330	SSU_rRNA_eukarya links to Rfam database...	0.39	0.31	0.49	160	1988690	189	26	139	24	357
CRW_00411	SSU_rRNA_eukarya links to Rfam database...	0.31	0.25	0.40	122	1615195	206	23	163	20	374
CRW_00414	SSU_rRNA_eukarya links to Rfam database...	0.33	0.29	0.36	146	1665818	288	38	223	27	349
CRW_00789	SSU_rRNA_bacteria links to Rfam database...	0.78	0.71	0.86	318	1137416	79	8	44	27	129
PDB_00571	tRNA links to Rfam database...	0.59	0.52	0.68	13	3302	7	0	6	1	12
PDB_00828	Purine links to Rfam database...	0.84	0.70	1.00	19	2466	0	0	0	0	8
PDB_00829	Purine links to Rfam database...	0.82	0.67	1.00	16	2262	0	0	0	0	8
PDB_01020	Purine links to Rfam database...	0.83	0.70	1.00	16	2262	0	0	0	0	7
PDB_01073	SAM links to Rfam database...	0.66	0.44	1.00	15	4356	1	0	0	1	19
PDB_01105	SSU_rRNA_bacteria links to Rfam database...	0.73	0.62	0.86	337	1433581	81	3	50	28	203
RFA_00599	Telomerase-vert links to Rfam database...	0.44	0.34	0.58	38	101409	33	1	27	5	73
RFA_00601	Telomerase-vert links to Rfam database...	0.31	0.23	0.42	26	99173	43	3	33	7	88
RFA_00602	Telomerase-vert links to Rfam database...	0.24	0.16	0.35	19	101421	41	2	33	6	97
TMR_00017	tmRNA links to Rfam database...	0.72	0.60	0.87	61	67091	13	0	9	4	41
TMR_00018	tmRNA links to Rfam database...	0.56	0.49	0.65	45	64551	29	6	18	5	47
TMR_00038	tmRNA links to Rfam database...	0.67	0.53	0.84	58	71184	13	5	6	2	52
TMR_00042	tmRNA links to Rfam database...	0.56	0.44	0.70	43	62774	19	1	17	1	55
TMR_00046	tmRNA links to Rfam database...	0.60	0.52	0.69	50	62763	23	6	16	1	46
TMR_00048	tmRNA links to Rfam database...	0.56	0.48	0.66	46	64910	29	9	15	5	49
TMR_00080	tmRNA links to Rfam database...	0.54	0.49	0.60	47	70422	35	12	19	4	49
TMR_00082	tmRNA links to Rfam database...	0.59	0.50	0.71	48	67828	25	7	13	5	48
TMR_00123	tmRNA links to Rfam database...	0.64	0.50	0.81	51	66367	17	3	9	5	50
TMR_00137	tmRNA links to Rfam database...	0.54	0.46	0.64	41	61011	28	5	18	5	48
TMR_00142	tmRNA links to Rfam database...	0.64	0.60	0.69	61	70788	34	12	15	7	41
TMR_00207	tmRNA links to Rfam database...	0.53	0.42	0.66	43	72325	26	4	18	4	60
TMR_00257	tmRNA links to Rfam database...	0.56	0.48	0.64	47	67088	29	4	22	3	51
TMR_00271	tmRNA links to Rfam database...	0.55	0.42	0.72	38	64208	20	1	14	5	53
TMR_00332	tmRNA links to Rfam database...	0.70	0.58	0.85	57	67094	16	0	10	6	42
TMR_00366	tmRNA links to Rfam database...	0.53	0.49	0.58	49	67811	43	8	28	7	51
TMR_00378	tmRNA links to Rfam database...	0.57	0.51	0.64	49	67820	37	9	18	10	48
TMR_00399	tmRNA links to Rfam database...	0.61	0.47	0.79	44	64924	18	2	10	6	50
TMR_00404	tmRNA links to Rfam database...	0.53	0.41	0.68	38	67472	21	8	10	3	54
TMR_00427	tmRNA links to Rfam database...	0.20	0.13	0.30	13	67485	30	4	26	0	84
TMR_00443	tmRNA links to Rfam database...	0.73	0.61	0.88	63	67089	13	0	9	4	41
TMR_00451	tmRNA links to Rfam database...	0.52	0.46	0.58	41	63475	36	8	22	6	48
TMR_00458	tmRNA links to Rfam database...	0.50	0.41	0.61	38	63484	29	4	20	5	55
TMR_00469	tmRNA links to Rfam database...	0.64	0.48	0.84	48	64563	10	3	6	1	52
TMR_00472	tmRNA links to Rfam database...	0.70	0.61	0.81	59	64547	15	8	6	1	38
TMR_00519	tmRNA links to Rfam database...	0.49	0.37	0.65	35	63136	23	2	17	4	60
TMR_00520	tmRNA links to Rfam database...	0.44	0.35	0.54	35	63125	36	5	25	6	64
TMR_00522	tmRNA links to Rfam database...	0.49	0.39	0.60	38	63127	29	8	17	4	59
TMR_00528	tmRNA links to Rfam database...	0.48	0.41	0.57	40	63120	36	7	23	6	57
TMR_00540	tmRNA links to Rfam database...	0.53	0.45	0.63	47	73461	28	8	20	0	57
TMR_00568	tmRNA links to Rfam database...	0.72	0.64	0.82	63	60649	18	3	11	4	36
TMR_00571	tmRNA links to Rfam database...	0.76	0.67	0.86	66	60649	15	2	9	4	33
TMR_00580	tmRNA links to Rfam database...	0.75	0.66	0.86	66	60649	15	2	9	4	34
TMR_00584	tmRNA links to Rfam database...	0.71	0.62	0.81	60	61001	17	4	10	3	37
TMR_00586	tmRNA links to Rfam database...	0.71	0.63	0.79	61	60998	20	5	11	4	36
TMR_00616	tmRNA links to Rfam database...	0.67	0.58	0.79	57	67089	16	6	9	1	42
TMR_00699	tmRNA links to Rfam database...	0.57	0.43	0.75	44	67102	19	1	14	4	58
TMR_00702	tmRNA links to Rfam database...	0.54	0.43	0.68	43	67098	25	3	17	5	57
TMR_00703	tmRNA links to Rfam database...	0.58	0.45	0.75	45	67468	19	3	12	4	54

^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 CentroidAlifold(20) - scored higher in this pairwise comparison

1. Total counts & total scores for CentroidAlifold(20)

2. Individual counts for CentroidAlifold(20) [ download as .csv ]

Performance of Murlet(20) - scored lower in this pairwise comparison

1. Total counts & total scores for Murlet(20)

2. Individual counts for Murlet(20) [ download as .csv ]