CompaRNA - on-line benchmarks of RNA structure prediction methods

Laboratory of Structural Bioinformatics @ Adam Mickiewicz University in Poznan

Home

Methods

Datasets

Rankings

RNA 2D Atlas

Help

FAQ

Contact us

RSS feeds

Twitter

Overview

Metric	CentroidAlifold(20)		RNAalifold(seed)
MCC	0.724	>	0.446
Average MCC ± 95% Confidence Intervals	0.725 ± 0.014	>	0.440 ± 0.013
Sensitivity	0.562	>	0.249
Positive Predictive Value	0.933	>	0.799
Total TP	9730	>	4315
Total TN	9708638	<	9713672
Total FP	817	<	1142
Total FP CONTRA	97	<	178
Total FP INCONS	606	<	906
Total FP COMP	114	>	58
Total FN	7573	<	12988
P-value	3.56938820447e-08

^top

Performance plots

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

^top

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

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

Total Base Pair Counts
Total TP	9730
Total TN	9708638
Total FP	817
Total FP CONTRA	97
Total FP INCONS	606
Total FP COMP	114
Total FN	7573

Total Scores
MCC	0.724
Average MCC ± 95% Confidence Intervals	0.725 ± 0.014
Sensitivity	0.562
Positive Predictive Value	0.933
Nr of predictions	162

^top

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_00005	RNaseP_bact_a links to Rfam database...	0.74	0.56	0.97	66	57902	2	0	2	0	51
ASE_00006	RNaseP_bact_a links to Rfam database...	0.66	0.49	0.88	46	47534	6	0	6	0	47
ASE_00007	RNaseP_bact_a links to Rfam database...	0.84	0.73	0.96	80	59602	3	0	3	0	30
ASE_00012	RNaseP_bact_a links to Rfam database...	0.71	0.56	0.90	69	73843	11	2	6	3	54
ASE_00018	RNaseP_bact_a links to Rfam database...	0.76	0.60	0.95	81	80516	4	1	3	0	53
ASE_00020	RNaseP_bact_a links to Rfam database...	0.60	0.41	0.87	52	73860	8	5	3	0	74
ASE_00021	RNaseP_bact_a links to Rfam database...	0.55	0.36	0.86	57	104130	12	2	7	3	103
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_00037	RNaseP_bact_a links to Rfam database...	0.80	0.65	1.00	71	59269	1	0	0	1	39
ASE_00038	RNaseP_bact_a links to Rfam database...	0.76	0.58	1.00	59	53569	0	0	0	0	42
ASE_00040	RNaseP_bact_a links to Rfam database...	0.80	0.66	0.97	88	78912	5	0	3	2	45
ASE_00041	RNaseP_bact_a links to Rfam database...	0.77	0.66	0.90	71	57551	8	0	8	0	37
ASE_00042	RNaseP_bact_a links to Rfam database...	0.60	0.44	0.81	64	90021	15	0	15	0	81
ASE_00044	RNaseP_bact_a links to Rfam database...	0.83	0.70	0.99	74	54540	1	0	1	0	31
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_00074	RNaseP_bact_a links to Rfam database...	0.79	0.63	1.00	75	67821	1	0	0	1	44
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_00090	RNaseP_bact_a links to Rfam database...	0.76	0.58	1.00	59	55552	0	0	0	0	42
ASE_00092	RNaseP_bact_a links to Rfam database...	0.71	0.52	0.97	59	63485	2	1	1	0	54
ASE_00099	RNaseP_bact_a links to Rfam database...	0.83	0.68	1.00	82	64538	0	0	0	0	38
ASE_00104	RNaseP_bact_a links to Rfam database...	0.79	0.64	0.97	76	64183	2	0	2	0	43
ASE_00105	RNaseP_bact_a links to Rfam database...	0.53	0.37	0.76	41	64207	13	2	11	0	70
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_00118	RNaseP_bact_a links to Rfam database...	0.68	0.49	0.94	50	60673	4	1	2	1	52
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_00125	RNaseP_bact_a links to Rfam database...	0.71	0.50	1.00	44	39296	0	0	0	0	44
ASE_00128	RNaseP_bact_a links to Rfam database...	0.76	0.58	1.00	58	53243	0	0	0	0	42
ASE_00129	RNaseP_bact_a links to Rfam database...	0.75	0.57	1.00	63	62772	0	0	0	0	48
ASE_00131	RNaseP_bact_a links to Rfam database...	0.73	0.53	1.00	45	39295	0	0	0	0	40
ASE_00134	RNaseP_bact_a links to Rfam database...	0.74	0.61	0.89	58	50338	7	0	7	0	37
ASE_00135	RNaseP_bact_a links to Rfam database...	0.58	0.43	0.78	47	63130	13	0	13	0	62
ASE_00136	RNaseP_bact_a links to Rfam database...	0.77	0.62	0.95	57	48145	3	0	3	0	35
ASE_00137	RNaseP_bact_a links to Rfam database...	0.68	0.51	0.91	50	48461	6	0	5	1	48
ASE_00138	RNaseP_bact_a links to Rfam database...	0.82	0.69	0.98	56	40413	1	1	0	0	25
ASE_00140	RNaseP_bact_a links to Rfam database...	0.60	0.40	0.91	50	70821	5	3	2	0	75
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_00165	RNaseP_bact_a links to Rfam database...	0.73	0.54	0.98	55	52919	2	0	1	1	46
ASE_00170	RNaseP_bact_a links to Rfam database...	0.75	0.62	0.91	58	48764	6	1	5	0	35
ASE_00171	RNaseP_bact_a links to Rfam database...	0.79	0.63	0.98	59	48456	2	0	1	1	35
ASE_00172	RNaseP_bact_a links to Rfam database...	0.69	0.51	0.95	54	58939	3	2	1	0	52
ASE_00174	RNaseP_bact_a links to Rfam database...	0.60	0.44	0.83	48	61017	10	1	9	0	61
ASE_00175	RNaseP_bact_a links to Rfam database...	0.66	0.51	0.86	55	59967	9	1	8	0	52
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_00181	RNaseP_bact_a links to Rfam database...	0.71	0.54	0.93	57	57569	6	1	3	2	49
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_00197	RNaseP_bact_a links to Rfam database...	0.66	0.50	0.87	72	89170	12	0	11	1	73
ASE_00203	RNaseP_bact_a links to Rfam database...	0.76	0.58	0.98	56	46608	1	0	1	0	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_00216	RNaseP_bact_a links to Rfam database...	0.82	0.67	1.00	55	39285	0	0	0	0	27
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_00231	RNaseP_bact_a links to Rfam database...	0.64	0.48	0.87	46	47842	7	0	7	0	50
ASE_00232	RNaseP_bact_a links to Rfam database...	0.81	0.68	0.97	57	38444	2	2	0	0	27
ASE_00234	RNaseP_bact_a links to Rfam database...	0.58	0.42	0.82	54	75400	12	5	7	0	75
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_00242	RNaseP_bact_a links to Rfam database...	0.87	0.77	0.99	86	60988	3	0	1	2	26
ASE_00248	RNaseP_bact_a links to Rfam database...	0.84	0.72	0.99	82	62398	2	0	1	1	32
ASE_00254	RNaseP_bact_a links to Rfam database...	0.83	0.70	0.98	57	36798	1	0	1	0	25
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_00263	RNaseP_bact_a links to Rfam database...	0.72	0.53	0.98	63	70436	1	1	0	0	57
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_00274	RNaseP_bact_a links to Rfam database...	0.65	0.47	0.91	48	55558	5	3	2	0	55
ASE_00277	RNaseP_bact_a links to Rfam database...	0.62	0.47	0.83	43	48153	9	2	7	0	48
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_00282	RNaseP_bact_a links to Rfam database...	0.71	0.50	1.00	64	77751	0	0	0	0	63
ASE_00283	RNaseP_bact_a links to Rfam database...	0.72	0.54	0.97	58	61716	2	0	2	0	49
ASE_00284	RNaseP_bact_a links to Rfam database...	0.74	0.56	0.98	60	58250	1	0	1	0	48
ASE_00285	RNaseP_bact_a links to Rfam database...	0.73	0.56	0.94	68	68934	4	2	2	0	54
ASE_00286	RNaseP_bact_a links to Rfam database...	0.79	0.64	0.98	59	46605	1	0	1	0	33
ASE_00287	RNaseP_bact_a links to Rfam database...	0.67	0.53	0.83	55	54880	11	0	11	0	48
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_00296	RNaseP_bact_a links to Rfam database...	0.72	0.57	0.92	82	91717	8	1	6	1	63
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_00342	RNaseP_bact_a links to Rfam database...	0.86	0.75	0.99	86	62394	1	0	1	0	29
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_00369	RNaseP_bact_a links to Rfam database...	0.77	0.60	0.98	64	55880	1	0	1	0	43
ASE_00370	RNaseP_bact_a links to Rfam database...	0.76	0.60	0.96	50	41853	2	0	2	0	34
ASE_00372	RNaseP_bact_a links to Rfam database...	0.75	0.57	0.98	57	51945	1	0	1	0	43
ASE_00374	RNaseP_bact_a links to Rfam database...	0.81	0.66	1.00	58	44792	0	0	0	0	30
ASE_00376	RNaseP_bact_a links to Rfam database...	0.72	0.55	0.94	58	56891	4	0	4	0	47
ASE_00377	RNaseP_bact_a links to Rfam database...	0.66	0.50	0.88	53	57570	7	1	6	0	54
ASE_00379	RNaseP_bact_a links to Rfam database...	0.76	0.61	0.96	54	46000	3	1	1	1	35
ASE_00382	RNaseP_bact_a links to Rfam database...	0.85	0.73	0.98	61	41843	2	0	1	1	23
ASE_00383	RNaseP_bact_a links to Rfam database...	0.77	0.59	1.00	62	54553	0	0	0	0	43
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_00401	RNaseP_bact_a links to Rfam database...	0.65	0.44	0.95	56	76969	3	1	2	0	70
ASE_00402	RNaseP_bact_a links to Rfam database...	0.79	0.62	1.00	53	42433	0	0	0	0	32
ASE_00403	RNaseP_bact_a links to Rfam database...	0.75	0.57	0.98	61	55883	1	0	1	0	46
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_00413	RNaseP_bact_a links to Rfam database...	0.77	0.64	0.93	52	44495	5	3	1	1	29
ASE_00415	RNaseP_bact_a links to Rfam database...	0.55	0.39	0.78	40	54895	11	0	11	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_00441	RNaseP_bact_a links to Rfam database...	0.62	0.41	0.94	46	64212	4	0	3	1	66
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
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

^top

Performance of RNAalifold(seed) - scored lower in this pairwise comparison

1. Total counts & total scores for RNAalifold(seed)

Total Base Pair Counts
Total TP	4315
Total TN	9713672
Total FP	1142
Total FP CONTRA	178
Total FP INCONS	906
Total FP COMP	58
Total FN	12988

Total Scores
MCC	0.446
Average MCC ± 95% Confidence Intervals	0.440 ± 0.013
Sensitivity	0.249
Positive Predictive Value	0.799
Nr of predictions	162

^top

2. Individual counts for RNAalifold(seed) [ 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...	0.45	0.23	0.88	22	47870	3	0	3	0	75
ASE_00005	RNaseP_bact_a links to Rfam database...	0.45	0.26	0.79	30	57932	8	1	7	0	87
ASE_00006	RNaseP_bact_a links to Rfam database...	0.42	0.22	0.83	20	47562	4	0	4	0	73
ASE_00007	RNaseP_bact_a links to Rfam database...	0.52	0.33	0.82	36	59641	8	1	7	0	74
ASE_00012	RNaseP_bact_a links to Rfam database...	0.46	0.26	0.80	32	73880	11	1	7	3	91
ASE_00018	RNaseP_bact_a links to Rfam database...	0.47	0.27	0.82	36	80557	8	1	7	0	98
ASE_00020	RNaseP_bact_a links to Rfam database...	0.36	0.17	0.73	22	73890	8	3	5	0	104
ASE_00021	RNaseP_bact_a links to Rfam database...	0.39	0.18	0.83	29	104161	6	1	5	0	131
ASE_00022	RNaseP_bact_b links to Rfam database...	0.65	0.48	0.89	59	82962	13	1	6	6	65
ASE_00028	RNaseP_bact_b links to Rfam database...	0.65	0.48	0.90	60	84599	12	1	6	5	66
ASE_00035	RNaseP_bact_a links to Rfam database...	0.47	0.28	0.80	33	70459	11	1	7	3	85
ASE_00037	RNaseP_bact_a links to Rfam database...	0.51	0.32	0.81	35	59297	8	1	7	0	75
ASE_00038	RNaseP_bact_a links to Rfam database...	0.42	0.23	0.79	23	53599	6	1	5	0	78
ASE_00040	RNaseP_bact_a links to Rfam database...	0.47	0.27	0.82	36	78959	8	1	7	0	97
ASE_00041	RNaseP_bact_a links to Rfam database...	0.49	0.28	0.88	30	57596	4	0	4	0	78
ASE_00042	RNaseP_bact_a links to Rfam database...	0.41	0.23	0.75	33	90056	11	1	10	0	112
ASE_00044	RNaseP_bact_a links to Rfam database...	0.52	0.33	0.81	35	54572	8	1	7	0	70
ASE_00064	RNaseP_bact_a links to Rfam database...	0.44	0.25	0.79	22	45423	6	1	5	0	67
ASE_00068	RNaseP_bact_a links to Rfam database...	0.37	0.20	0.68	17	37650	8	1	7	0	68
ASE_00074	RNaseP_bact_a links to Rfam database...	0.50	0.30	0.82	36	67852	8	1	7	0	83
ASE_00075	RNaseP_bact_a links to Rfam database...	0.38	0.19	0.79	30	108773	13	1	7	5	132
ASE_00077	RNaseP_bact_a links to Rfam database...	0.40	0.21	0.75	18	45126	6	1	5	0	68
ASE_00078	RNaseP_bact_a links to Rfam database...	0.49	0.28	0.85	23	43044	6	0	4	2	60
ASE_00080	RNaseP_bact_a links to Rfam database...	0.23	0.11	0.48	14	71602	15	1	14	0	109
ASE_00081	RNaseP_bact_a links to Rfam database...	0.43	0.24	0.79	23	49741	6	1	5	0	74
ASE_00082	RNaseP_bact_a links to Rfam database...	0.34	0.16	0.75	18	70476	6	1	5	0	98
ASE_00083	RNaseP_bact_a links to Rfam database...	0.41	0.21	0.79	23	62452	6	1	5	0	87
ASE_00084	RNaseP_bact_a links to Rfam database...	0.43	0.23	0.79	23	53599	6	1	5	0	76
ASE_00087	RNaseP_bact_a links to Rfam database...	0.36	0.16	0.79	23	88381	6	1	5	0	121
ASE_00090	RNaseP_bact_a links to Rfam database...	0.42	0.23	0.79	23	55582	6	1	5	0	78
ASE_00092	RNaseP_bact_a links to Rfam database...	0.40	0.20	0.79	23	63517	6	1	5	0	90
ASE_00099	RNaseP_bact_a links to Rfam database...	0.49	0.30	0.82	36	64576	8	1	7	0	84
ASE_00104	RNaseP_bact_a links to Rfam database...	0.50	0.30	0.82	36	64217	8	1	7	0	83
ASE_00105	RNaseP_bact_a links to Rfam database...	0.38	0.20	0.73	22	64231	8	3	5	0	89
ASE_00107	RNaseP_bact_a links to Rfam database...	0.48	0.28	0.82	36	73109	8	1	7	0	91
ASE_00115	RNaseP_bact_a links to Rfam database...	0.41	0.22	0.79	22	54587	6	1	5	0	79
ASE_00118	RNaseP_bact_a links to Rfam database...	0.41	0.22	0.79	22	60698	7	1	5	1	80
ASE_00119	RNaseP_bact_a links to Rfam database...	0.31	0.12	0.81	13	62819	3	1	2	0	95
ASE_00123	RNaseP_bact_a links to Rfam database...	0.38	0.20	0.74	17	38480	6	1	5	0	68
ASE_00125	RNaseP_bact_a links to Rfam database...	0.37	0.16	0.88	14	39324	2	0	2	0	74
ASE_00128	RNaseP_bact_a links to Rfam database...	0.44	0.22	0.88	22	53276	3	1	2	0	78
ASE_00129	RNaseP_bact_a links to Rfam database...	0.40	0.21	0.79	23	62806	6	1	5	0	88
ASE_00131	RNaseP_bact_a links to Rfam database...	0.38	0.20	0.71	17	39316	7	2	5	0	68
ASE_00134	RNaseP_bact_a links to Rfam database...	0.44	0.24	0.79	23	50374	6	1	5	0	72
ASE_00135	RNaseP_bact_a links to Rfam database...	0.37	0.19	0.72	21	63161	8	1	7	0	88
ASE_00136	RNaseP_bact_a links to Rfam database...	0.44	0.25	0.79	23	48176	6	1	5	0	69
ASE_00137	RNaseP_bact_a links to Rfam database...	0.44	0.22	0.85	22	48490	4	0	4	0	76
ASE_00138	RNaseP_bact_a links to Rfam database...	0.47	0.28	0.79	23	40441	6	1	5	0	58
ASE_00140	RNaseP_bact_a links to Rfam database...	0.36	0.18	0.73	22	70846	8	3	5	0	103
ASE_00142	RNaseP_bact_a links to Rfam database...	0.50	0.30	0.84	36	67118	7	1	6	0	86
ASE_00146	RNaseP_bact_a links to Rfam database...	0.49	0.29	0.82	36	70832	8	1	7	0	88
ASE_00153	RNaseP_nuc links to Rfam database...	0.37	0.21	0.68	15	57608	7	0	7	0	58
ASE_00163	RNaseP_bact_a links to Rfam database...	0.44	0.25	0.79	23	53272	6	1	5	0	70
ASE_00165	RNaseP_bact_a links to Rfam database...	0.40	0.20	0.80	20	52950	5	1	4	0	81
ASE_00170	RNaseP_bact_a links to Rfam database...	0.44	0.25	0.79	23	48799	6	1	5	0	70
ASE_00171	RNaseP_bact_a links to Rfam database...	0.44	0.24	0.79	23	48487	6	1	5	0	71
ASE_00172	RNaseP_bact_a links to Rfam database...	0.41	0.22	0.79	23	58967	6	1	5	0	83
ASE_00174	RNaseP_bact_a links to Rfam database...	0.39	0.20	0.76	22	61046	7	2	5	0	87
ASE_00175	RNaseP_bact_a links to Rfam database...	0.41	0.21	0.77	23	60001	7	2	5	0	84
ASE_00179	RNaseP_bact_a links to Rfam database...	0.39	0.20	0.77	17	44231	5	1	4	0	67
ASE_00180	RNaseP_bact_a links to Rfam database...	0.42	0.23	0.77	23	51330	7	2	5	0	77
ASE_00181	RNaseP_bact_a links to Rfam database...	0.41	0.22	0.77	23	57600	7	2	5	0	83
ASE_00182	RNaseP_bact_a links to Rfam database...	0.37	0.17	0.79	23	84226	6	1	5	0	113
ASE_00184	RNaseP_bact_a links to Rfam database...	0.42	0.23	0.79	23	54586	6	1	5	0	79
ASE_00185	RNaseP_bact_a links to Rfam database...	0.38	0.18	0.79	23	73507	6	1	5	0	105
ASE_00186	RNaseP_bact_a links to Rfam database...	0.43	0.25	0.75	33	78959	11	1	10	0	99
ASE_00190	RNaseP_bact_b links to Rfam database...	0.66	0.50	0.87	45	45399	12	1	6	5	45
ASE_00197	RNaseP_bact_a links to Rfam database...	0.41	0.23	0.75	33	89209	11	1	10	0	112
ASE_00203	RNaseP_bact_a links to Rfam database...	0.40	0.21	0.77	20	46639	6	2	4	0	76
ASE_00212	RNaseP_bact_a links to Rfam database...	0.40	0.22	0.74	32	93918	11	1	10	0	116
ASE_00214	RNaseP_bact_a links to Rfam database...	0.35	0.17	0.72	18	56255	7	2	5	0	85
ASE_00215	RNaseP_bact_a links to Rfam database...	0.36	0.17	0.74	17	48493	6	1	5	0	82
ASE_00216	RNaseP_bact_a links to Rfam database...	0.46	0.24	0.87	20	39317	3	0	3	0	62
ASE_00217	RNaseP_bact_a links to Rfam database...	0.51	0.33	0.79	30	40432	8	1	7	0	60
ASE_00221	RNaseP_bact_a links to Rfam database...	0.50	0.31	0.82	36	64576	8	1	7	0	81
ASE_00228	RNaseP_bact_a links to Rfam database...	0.47	0.26	0.88	22	46946	3	0	3	0	64
ASE_00229	RNaseP_bact_a links to Rfam database...	0.47	0.25	0.88	22	42461	3	0	3	0	65
ASE_00231	RNaseP_bact_a links to Rfam database...	0.45	0.23	0.88	22	47870	3	0	3	0	74
ASE_00232	RNaseP_bact_a links to Rfam database...	0.48	0.26	0.88	22	38478	3	0	3	0	62
ASE_00234	RNaseP_bact_a links to Rfam database...	0.35	0.17	0.73	22	75436	8	3	5	0	107
ASE_00238	RNaseP_bact_a links to Rfam database...	0.38	0.19	0.73	22	64231	8	3	5	0	92
ASE_00241	RNaseP_bact_a links to Rfam database...	0.46	0.26	0.79	23	43927	6	1	5	0	64
ASE_00242	RNaseP_bact_a links to Rfam database...	0.51	0.32	0.82	36	61031	8	1	7	0	76
ASE_00248	RNaseP_bact_a links to Rfam database...	0.51	0.32	0.82	36	62437	8	1	7	0	78
ASE_00254	RNaseP_bact_a links to Rfam database...	0.49	0.27	0.88	22	36831	3	0	3	0	60
ASE_00255	RNaseP_bact_a links to Rfam database...	0.47	0.27	0.81	35	74648	8	1	7	0	95
ASE_00257	RNaseP_bact_a links to Rfam database...	0.43	0.24	0.79	23	51011	6	1	5	0	74
ASE_00263	RNaseP_bact_a links to Rfam database...	0.39	0.19	0.79	23	70471	6	1	5	0	97
ASE_00267	RNaseP_bact_a links to Rfam database...	0.45	0.26	0.79	23	45121	6	1	5	0	65
ASE_00270	RNaseP_bact_a links to Rfam database...	0.22	0.09	0.52	12	72367	12	1	10	1	116
ASE_00274	RNaseP_bact_a links to Rfam database...	0.40	0.21	0.73	22	55581	8	3	5	0	81
ASE_00277	RNaseP_bact_a links to Rfam database...	0.42	0.24	0.73	22	48175	8	3	5	0	69
ASE_00279	RNaseP_bact_a links to Rfam database...	0.42	0.23	0.79	23	53272	6	1	5	0	78
ASE_00280	RNaseP_bact_a links to Rfam database...	0.40	0.18	0.86	18	51982	3	1	2	0	80
ASE_00281	RNaseP_bact_a links to Rfam database...	0.45	0.26	0.79	23	44522	6	1	5	0	65
ASE_00282	RNaseP_bact_a links to Rfam database...	0.37	0.18	0.77	23	77785	7	2	5	0	104
ASE_00283	RNaseP_bact_a links to Rfam database...	0.35	0.17	0.75	18	61752	6	1	5	0	89
ASE_00284	RNaseP_bact_a links to Rfam database...	0.40	0.21	0.77	23	58281	7	2	5	0	85
ASE_00285	RNaseP_bact_a links to Rfam database...	0.39	0.19	0.79	23	68977	6	1	5	0	99
ASE_00286	RNaseP_bact_a links to Rfam database...	0.43	0.24	0.79	22	46637	6	1	5	0	70
ASE_00287	RNaseP_bact_a links to Rfam database...	0.42	0.22	0.79	23	54917	6	1	5	0	80
ASE_00292	RNaseP_bact_a links to Rfam database...	0.46	0.26	0.82	36	81766	8	1	7	0	102
ASE_00294	RNaseP_bact_a links to Rfam database...	0.41	0.21	0.82	36	114437	8	1	7	0	135
ASE_00296	RNaseP_bact_a links to Rfam database...	0.45	0.25	0.82	36	91762	8	1	7	0	109
ASE_00297	RNaseP_bact_a links to Rfam database...	0.43	0.23	0.79	23	52946	6	1	5	0	75
ASE_00298	RNaseP_bact_a links to Rfam database...	0.40	0.20	0.79	23	67499	6	1	5	0	90
ASE_00318	RNaseP_bact_b links to Rfam database...	0.66	0.48	0.89	57	80136	13	1	6	6	61
ASE_00328	RNaseP_bact_b links to Rfam database...	0.69	0.54	0.90	60	72704	12	1	6	5	52
ASE_00332	RNaseP_bact_a links to Rfam database...	0.46	0.26	0.82	36	81766	8	1	7	0	102
ASE_00335	RNaseP_bact_b links to Rfam database...	0.68	0.52	0.90	60	75399	12	1	6	5	56
ASE_00340	RNaseP_bact_a links to Rfam database...	0.43	0.21	0.86	18	46035	3	0	3	0	67
ASE_00342	RNaseP_bact_a links to Rfam database...	0.51	0.31	0.82	36	62437	8	1	7	0	79
ASE_00353	RNaseP_bact_a links to Rfam database...	0.41	0.21	0.77	23	57940	7	2	5	0	84
ASE_00361	RNaseP_bact_a links to Rfam database...	0.36	0.17	0.76	22	75437	7	2	5	0	105
ASE_00362	RNaseP_bact_a links to Rfam database...	0.45	0.25	0.79	23	48176	6	1	5	0	68
ASE_00363	RNaseP_bact_a links to Rfam database...	0.44	0.24	0.79	23	51331	6	1	5	0	71
ASE_00364	RNaseP_bact_a links to Rfam database...	0.41	0.22	0.77	23	54255	7	2	5	0	82
ASE_00366	RNaseP_bact_a links to Rfam database...	0.36	0.18	0.72	18	58628	7	2	5	0	80
ASE_00367	RNaseP_bact_a links to Rfam database...	0.46	0.27	0.79	23	43042	6	1	5	0	63
ASE_00369	RNaseP_bact_a links to Rfam database...	0.41	0.21	0.79	23	55916	6	1	5	0	84
ASE_00370	RNaseP_bact_a links to Rfam database...	0.45	0.26	0.76	22	41876	7	1	6	0	62
ASE_00372	RNaseP_bact_a links to Rfam database...	0.41	0.22	0.76	22	51974	7	1	6	0	78
ASE_00374	RNaseP_bact_a links to Rfam database...	0.45	0.26	0.79	23	44821	6	1	5	0	65
ASE_00376	RNaseP_bact_a links to Rfam database...	0.42	0.22	0.79	23	56924	6	1	5	0	82
ASE_00377	RNaseP_bact_a links to Rfam database...	0.41	0.21	0.77	23	57600	7	2	5	0	84
ASE_00379	RNaseP_bact_a links to Rfam database...	0.45	0.26	0.79	23	46027	6	1	5	0	66
ASE_00382	RNaseP_bact_a links to Rfam database...	0.47	0.27	0.79	23	41876	6	1	5	0	61
ASE_00383	RNaseP_bact_a links to Rfam database...	0.42	0.22	0.79	23	54586	6	1	5	0	82
ASE_00384	RNaseP_bact_a links to Rfam database...	0.44	0.25	0.79	23	48487	6	1	5	0	69
ASE_00386	RNaseP_bact_a links to Rfam database...	0.44	0.24	0.79	23	50374	6	1	5	0	73
ASE_00387	RNaseP_bact_a links to Rfam database...	0.38	0.20	0.72	21	55916	8	1	7	0	83
ASE_00388	RNaseP_bact_a links to Rfam database...	0.45	0.26	0.79	23	45724	6	1	5	0	66
ASE_00390	RNaseP_bact_a links to Rfam database...	0.46	0.27	0.79	23	42166	6	1	5	0	62
ASE_00393	RNaseP_bact_a links to Rfam database...	0.40	0.23	0.72	21	47866	8	1	7	0	72
ASE_00394	RNaseP_bact_a links to Rfam database...	0.44	0.25	0.79	23	46942	6	1	5	0	70
ASE_00395	RNaseP_bact_a links to Rfam database...	0.47	0.27	0.79	23	41587	6	1	5	0	61
ASE_00396	RNaseP_bact_a links to Rfam database...	0.47	0.28	0.79	23	41587	6	1	5	0	60
ASE_00397	RNaseP_bact_a links to Rfam database...	0.42	0.22	0.79	23	54586	6	1	5	0	82
ASE_00398	RNaseP_bact_a links to Rfam database...	0.42	0.22	0.79	23	55916	6	1	5	0	81
ASE_00400	RNaseP_bact_a links to Rfam database...	0.41	0.22	0.79	23	57941	6	1	5	0	83
ASE_00401	RNaseP_bact_a links to Rfam database...	0.33	0.14	0.75	18	77004	6	1	5	0	108
ASE_00402	RNaseP_bact_a links to Rfam database...	0.46	0.27	0.79	23	42457	6	1	5	0	62
ASE_00403	RNaseP_bact_a links to Rfam database...	0.41	0.21	0.79	23	55916	6	1	5	0	84
ASE_00404	RNaseP_bact_a links to Rfam database...	0.46	0.27	0.79	23	43042	6	1	5	0	62
ASE_00406	RNaseP_bact_a links to Rfam database...	0.44	0.24	0.79	23	48799	6	1	5	0	71
ASE_00411	RNaseP_bact_a links to Rfam database...	0.41	0.25	0.69	22	49423	10	5	5	0	67
ASE_00412	RNaseP_bact_a links to Rfam database...	0.39	0.21	0.73	22	58281	8	3	5	0	83
ASE_00413	RNaseP_bact_a links to Rfam database...	0.46	0.27	0.79	22	44523	6	1	5	0	59
ASE_00415	RNaseP_bact_a links to Rfam database...	0.33	0.17	0.68	17	54921	8	1	7	0	86
ASE_00416	RNaseP_bact_a links to Rfam database...	0.47	0.28	0.80	35	77377	9	1	8	0	92
ASE_00419	RNaseP_bact_a links to Rfam database...	0.40	0.21	0.73	22	54916	8	2	6	0	81
ASE_00422	RNaseP_bact_a links to Rfam database...	0.40	0.19	0.86	18	46950	3	0	3	0	76
ASE_00423	RNaseP_bact_a links to Rfam database...	0.51	0.32	0.81	35	56910	8	1	7	0	74
ASE_00428	RNaseP_bact_a links to Rfam database...	0.47	0.28	0.80	35	76592	9	1	8	0	90
ASE_00430	RNaseP_bact_a links to Rfam database...	0.41	0.21	0.83	20	46947	4	0	4	0	77
ASE_00437	RNaseP_bact_a links to Rfam database...	0.30	0.17	0.55	23	79359	19	1	18	0	112
ASE_00441	RNaseP_bact_a links to Rfam database...	0.38	0.19	0.78	21	64234	7	1	5	1	91
ASE_00448	RNaseP_bact_a links to Rfam database...	0.48	0.30	0.77	34	64217	10	1	9	0	78
ASE_00451	RNaseP_bact_a links to Rfam database...	0.48	0.29	0.82	36	70832	8	1	7	0	89
RFA_00599	Telomerase-vert links to Rfam database...	0.79	0.66	0.95	73	101398	7	0	4	3	38
RFA_00601	Telomerase-vert links to Rfam database...	0.79	0.67	0.93	76	99153	10	0	6	4	38
RFA_00602	Telomerase-vert links to Rfam database...	0.76	0.65	0.90	75	101392	11	0	8	3	41

^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 RNAalifold(seed) - scored lower in this pairwise comparison

1. Total counts & total scores for RNAalifold(seed)

2. Individual counts for RNAalifold(seed) [ download as .csv ]