CompaRNA - on-line benchmarks of RNA structure prediction methods

Laboratory of Structural Bioinformatics @ Adam Mickiewicz University in Poznan

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Overview

Metric	RNAsubopt		RNAalifold(seed)
MCC	0.533	>	0.470
Average MCC ± 95% Confidence Intervals	0.529 ± 0.017	>	0.464 ± 0.014
Sensitivity	0.530	>	0.272
Positive Predictive Value	0.537	<	0.813
Total TP	15221	>	7813
Total TN	16929635	<	16948351
Total FP	14888	>	1979
Total FP CONTRA	1785	>	258
Total FP INCONS	11321	>	1540
Total FP COMP	1782	>	181
Total FN	13487	<	20895
P-value	3.56938820447e-08

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Performance plots

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

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Performance of RNAsubopt - scored higher in this pairwise comparison

1. Total counts & total scores for RNAsubopt

Total Base Pair Counts
Total TP	15221
Total TN	16929635
Total FP	14888
Total FP CONTRA	1785
Total FP INCONS	11321
Total FP COMP	1782
Total FN	13487

Total Scores
MCC	0.533
Average MCC ± 95% Confidence Intervals	0.529 ± 0.017
Sensitivity	0.530
Positive Predictive Value	0.537
Nr of predictions	274

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

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
ASE_00001	RNaseP_arch links to Rfam database...	0.74	0.73	0.74	55	34117	26	4	15	7	20
ASE_00002	RNaseP_arch links to Rfam database...	0.63	0.62	0.64	45	35441	30	4	21	5	28
ASE_00004	RNaseP_bact_a links to Rfam database...	0.78	0.78	0.78	76	47798	22	2	19	1	21
ASE_00005	RNaseP_bact_a links to Rfam database...	0.55	0.53	0.57	62	57861	51	2	45	4	55
ASE_00006	RNaseP_bact_a links to Rfam database...	0.55	0.56	0.54	52	47489	46	5	40	1	41
ASE_00007	RNaseP_bact_a links to Rfam database...	0.37	0.37	0.37	41	59575	71	1	68	2	69
ASE_00009	RNaseP_arch links to Rfam database...	0.71	0.70	0.72	47	26041	21	3	15	3	20
ASE_00012	RNaseP_bact_a links to Rfam database...	0.44	0.43	0.44	53	73800	71	10	57	4	70
ASE_00014	RNaseP_arch links to Rfam database...	0.42	0.43	0.42	46	54175	67	10	54	3	60
ASE_00017	RNaseP_nuc links to Rfam database...	0.30	0.34	0.26	22	50955	83	20	43	20	42
ASE_00018	RNaseP_bact_a links to Rfam database...	0.67	0.64	0.70	86	80479	39	1	35	3	48
ASE_00020	RNaseP_bact_a links to Rfam database...	0.47	0.47	0.47	59	73795	66	10	56	0	67
ASE_00021	RNaseP_bact_a links to Rfam database...	0.56	0.54	0.58	86	104048	66	9	53	4	74
ASE_00022	RNaseP_bact_b links to Rfam database...	0.47	0.48	0.47	59	82903	73	6	60	7	65
ASE_00023	RNaseP_bact_a links to Rfam database...	0.56	0.57	0.56	72	84127	60	5	51	4	55
ASE_00025	RNaseP_nuc links to Rfam database...	0.24	0.28	0.20	20	78506	124	21	59	44	51
ASE_00026	RNaseP_bact_a links to Rfam database...	0.52	0.51	0.53	56	59580	57	1	48	8	54
ASE_00028	RNaseP_bact_b links to Rfam database...	0.70	0.67	0.72	85	84548	42	6	27	9	41
ASE_00029	RNaseP_bact_a links to Rfam database...	0.36	0.36	0.35	44	82904	82	15	65	2	78
ASE_00030	RNaseP_bact_a links to Rfam database...	0.64	0.62	0.66	90	85355	46	5	41	0	55
ASE_00031	RNaseP_bact_a links to Rfam database...	0.55	0.55	0.56	69	86612	61	3	52	6	57
ASE_00032	RNaseP_bact_a links to Rfam database...	0.60	0.60	0.60	71	80082	55	3	44	8	47
ASE_00033	RNaseP_bact_a links to Rfam database...	0.50	0.45	0.54	55	64879	47	3	43	1	66
ASE_00035	RNaseP_bact_a links to Rfam database...	0.37	0.36	0.38	42	70389	76	11	58	7	76
ASE_00036	RNaseP_bact_a links to Rfam database...	0.46	0.45	0.48	59	75731	68	8	57	3	73
ASE_00037	RNaseP_bact_a links to Rfam database...	0.42	0.40	0.45	44	59242	57	1	53	3	66
ASE_00038	RNaseP_bact_a links to Rfam database...	0.51	0.50	0.52	51	53529	49	3	45	1	50
ASE_00040	RNaseP_bact_a links to Rfam database...	0.36	0.35	0.37	47	78876	88	4	76	8	86
ASE_00041	RNaseP_bact_a links to Rfam database...	0.54	0.53	0.56	57	57528	50	2	43	5	51
ASE_00042	RNaseP_bact_a links to Rfam database...	0.60	0.57	0.63	83	89968	50	4	45	1	62
ASE_00044	RNaseP_bact_a links to Rfam database...	0.69	0.70	0.70	73	54510	36	3	29	4	32
ASE_00046	RNaseP_bact_a links to Rfam database...	0.51	0.50	0.53	52	50304	47	3	44	0	51
ASE_00047	RNaseP_bact_a links to Rfam database...	0.34	0.32	0.36	42	74188	76	5	70	1	88
ASE_00052	RNaseP_bact_a links to Rfam database...	0.50	0.46	0.54	52	61329	49	2	42	5	60
ASE_00053	RNaseP_bact_a links to Rfam database...	0.49	0.48	0.51	64	79275	68	7	55	6	69
ASE_00057	RNaseP_bact_a links to Rfam database...	0.63	0.62	0.65	83	82087	50	9	36	5	51
ASE_00064	RNaseP_bact_a links to Rfam database...	0.36	0.38	0.35	34	45353	68	8	56	4	55
ASE_00066	RNaseP_bact_a links to Rfam database...	0.45	0.42	0.49	55	72278	59	2	55	2	75
ASE_00068	RNaseP_bact_a links to Rfam database...	0.54	0.52	0.56	44	37597	35	0	34	1	41
ASE_00069	RNaseP_bact_a links to Rfam database...	0.67	0.65	0.70	91	82898	46	5	34	7	49
ASE_00074	RNaseP_bact_a links to Rfam database...	0.58	0.58	0.58	69	67777	50	6	44	0	50
ASE_00075	RNaseP_bact_a links to Rfam database...	0.67	0.62	0.72	101	108670	45	4	36	5	61
ASE_00076	RNaseP_bact_a links to Rfam database...	0.54	0.52	0.56	61	68156	48	5	43	0	57
ASE_00077	RNaseP_bact_a links to Rfam database...	0.28	0.28	0.28	24	45065	66	8	53	5	62
ASE_00078	RNaseP_bact_a links to Rfam database...	0.69	0.69	0.69	57	42988	31	5	21	5	26
ASE_00079	RNaseP_bact_a links to Rfam database...	0.53	0.52	0.54	52	55515	44	5	39	0	48
ASE_00080	RNaseP_bact_a links to Rfam database...	0.42	0.41	0.44	51	71514	69	8	58	3	72
ASE_00081	RNaseP_bact_a links to Rfam database...	0.57	0.55	0.60	53	49681	41	0	36	5	44
ASE_00082	RNaseP_bact_a links to Rfam database...	0.45	0.44	0.46	51	70389	70	5	55	10	65
ASE_00083	RNaseP_bact_a links to Rfam database...	0.76	0.74	0.78	81	62377	30	2	21	7	29
ASE_00084	RNaseP_bact_a links to Rfam database...	0.60	0.60	0.61	59	53532	45	2	35	8	40
ASE_00087	RNaseP_bact_a links to Rfam database...	0.54	0.50	0.59	72	88288	58	3	47	8	72
ASE_00090	RNaseP_bact_a links to Rfam database...	0.53	0.54	0.51	55	55503	57	4	49	4	46
ASE_00092	RNaseP_bact_a links to Rfam database...	0.73	0.73	0.73	82	63433	36	4	27	5	31
ASE_00096	RNaseP_bact_a links to Rfam database...	0.57	0.56	0.58	64	63436	47	4	42	1	51
ASE_00099	RNaseP_bact_a links to Rfam database...	0.65	0.63	0.67	75	64508	42	2	35	5	45
ASE_00100	RNaseP_nuc links to Rfam database...	0.17	0.18	0.16	14	82128	125	10	63	52	62
ASE_00102	RNaseP_bact_a links to Rfam database...	0.40	0.39	0.41	64	117699	95	10	82	3	102
ASE_00104	RNaseP_bact_a links to Rfam database...	0.54	0.51	0.58	61	64155	49	3	42	4	58
ASE_00105	RNaseP_bact_a links to Rfam database...	0.31	0.31	0.31	34	64151	81	9	67	5	77
ASE_00107	RNaseP_bact_a links to Rfam database...	0.66	0.63	0.69	80	73037	39	1	35	3	47
ASE_00108	RNaseP_nuc links to Rfam database...	0.55	0.57	0.52	36	46902	66	6	27	33	27
ASE_00111	RNaseP_nuc links to Rfam database...	0.27	0.33	0.21	19	49997	81	31	39	11	38
ASE_00112	RNaseP_bact_a links to Rfam database...	0.61	0.60	0.61	70	75352	50	11	33	6	46
ASE_00115	RNaseP_bact_a links to Rfam database...	0.62	0.62	0.62	63	54514	45	4	34	7	38
ASE_00116	RNaseP_arch links to Rfam database...	0.25	0.26	0.25	17	31557	55	10	42	3	49
ASE_00118	RNaseP_bact_a links to Rfam database...	0.55	0.55	0.55	56	60625	52	3	42	7	46
ASE_00119	RNaseP_bact_a links to Rfam database...	0.71	0.72	0.70	78	62723	36	4	30	2	30
ASE_00120	RNaseP_arch links to Rfam database...	0.48	0.49	0.47	46	46874	51	7	44	0	48
ASE_00121	RNaseP_arch links to Rfam database...	0.31	0.33	0.31	30	45052	70	9	59	2	62
ASE_00122	RNaseP_bact_a links to Rfam database...	0.19	0.19	0.19	17	43274	75	2	72	1	71
ASE_00123	RNaseP_bact_a links to Rfam database...	0.56	0.54	0.59	46	38425	37	2	30	5	39
ASE_00125	RNaseP_bact_a links to Rfam database...	0.63	0.63	0.64	55	39254	36	5	26	5	33
ASE_00128	RNaseP_bact_a links to Rfam database...	0.70	0.69	0.70	69	53203	37	3	26	8	31
ASE_00129	RNaseP_bact_a links to Rfam database...	0.75	0.74	0.75	82	62726	30	3	24	3	29
ASE_00131	RNaseP_bact_a links to Rfam database...	0.56	0.51	0.61	43	39270	37	1	26	10	42
ASE_00132	RNaseP_bact_a links to Rfam database...	0.47	0.47	0.47	45	50308	52	6	44	2	50
ASE_00134	RNaseP_bact_a links to Rfam database...	0.34	0.34	0.35	32	50311	65	4	56	5	63
ASE_00135	RNaseP_bact_a links to Rfam database...	0.45	0.45	0.45	49	63081	66	9	51	6	60
ASE_00136	RNaseP_bact_a links to Rfam database...	0.52	0.51	0.54	47	48118	49	1	39	9	45
ASE_00137	RNaseP_bact_a links to Rfam database...	0.56	0.55	0.58	54	48423	45	3	36	6	44
ASE_00138	RNaseP_bact_a links to Rfam database...	0.56	0.54	0.58	44	40394	32	0	32	0	37
ASE_00139	RNaseP_bact_a links to Rfam database...	0.72	0.67	0.77	70	54194	27	1	20	6	34
ASE_00140	RNaseP_bact_a links to Rfam database...	0.56	0.53	0.59	66	70765	45	6	39	0	59
ASE_00142	RNaseP_bact_a links to Rfam database...	0.49	0.48	0.50	59	67044	60	7	51	2	63
ASE_00145	RNaseP_arch links to Rfam database...	0.46	0.46	0.46	51	70015	66	7	52	7	60
ASE_00146	RNaseP_bact_a links to Rfam database...	0.56	0.53	0.60	66	70766	50	1	43	6	58
ASE_00148	RNaseP_arch links to Rfam database...	0.60	0.60	0.61	92	112425	61	6	52	3	62
ASE_00151	RNaseP_bact_a links to Rfam database...	0.27	0.27	0.28	26	51911	66	11	55	0	72
ASE_00153	RNaseP_nuc links to Rfam database...	0.67	0.68	0.66	50	57554	66	2	24	40	23
ASE_00154	RNaseP_arch links to Rfam database...	0.63	0.64	0.64	68	65234	42	4	35	3	39
ASE_00155	RNaseP_arch links to Rfam database...	0.54	0.54	0.54	76	93388	70	5	59	6	66
ASE_00163	RNaseP_bact_a links to Rfam database...	0.39	0.39	0.39	36	53209	65	6	50	9	57
ASE_00165	RNaseP_bact_a links to Rfam database...	0.66	0.64	0.68	65	52879	32	5	26	1	36
ASE_00168	RNaseP_nuc links to Rfam database...	0.16	0.20	0.13	13	60628	105	25	60	20	51
ASE_00169	RNaseP_bact_a links to Rfam database...	0.68	0.66	0.70	71	57189	35	5	26	4	36
ASE_00170	RNaseP_bact_a links to Rfam database...	0.67	0.66	0.69	61	48739	35	2	26	7	32
ASE_00171	RNaseP_bact_a links to Rfam database...	0.66	0.67	0.66	63	48420	33	5	28	0	31
ASE_00172	RNaseP_bact_a links to Rfam database...	0.62	0.63	0.60	67	58885	44	5	39	0	39
ASE_00174	RNaseP_bact_a links to Rfam database...	0.52	0.51	0.52	56	60967	54	6	46	2	53
ASE_00175	RNaseP_bact_a links to Rfam database...	0.65	0.64	0.67	68	59929	40	3	31	6	39
ASE_00176	RNaseP_bact_a links to Rfam database...	0.55	0.53	0.58	58	59931	45	4	38	3	52
ASE_00179	RNaseP_bact_a links to Rfam database...	0.66	0.68	0.64	57	44164	32	7	25	0	27
ASE_00180	RNaseP_bact_a links to Rfam database...	0.65	0.64	0.65	64	51262	39	3	31	5	36
ASE_00181	RNaseP_bact_a links to Rfam database...	0.54	0.55	0.54	58	57523	53	4	45	4	48
ASE_00182	RNaseP_bact_a links to Rfam database...	0.48	0.47	0.49	64	84125	66	4	62	0	72
ASE_00184	RNaseP_bact_a links to Rfam database...	0.62	0.64	0.61	65	54509	41	10	31	0	37
ASE_00185	RNaseP_bact_a links to Rfam database...	0.69	0.66	0.71	85	73416	38	7	28	3	43
ASE_00186	RNaseP_bact_a links to Rfam database...	0.75	0.73	0.78	97	78878	34	3	25	6	35
ASE_00187	RNaseP_arch links to Rfam database...	0.44	0.44	0.44	51	68520	69	8	56	5	64
ASE_00189	RNaseP_bact_b links to Rfam database...	0.58	0.57	0.60	58	63093	46	9	30	7	44
ASE_00190	RNaseP_bact_b links to Rfam database...	0.57	0.56	0.58	50	45365	42	7	29	6	40
ASE_00192	RNaseP_bact_b links to Rfam database...	0.28	0.26	0.30	35	84548	91	6	77	8	98
ASE_00194	RNaseP_bact_b links to Rfam database...	0.56	0.55	0.56	66	73418	56	13	39	4	53
ASE_00196	RNaseP_arch links to Rfam database...	0.74	0.73	0.75	55	31553	22	2	16	4	20
ASE_00197	RNaseP_bact_a links to Rfam database...	0.68	0.66	0.71	95	89120	42	3	35	4	50
ASE_00203	RNaseP_bact_a links to Rfam database...	0.76	0.75	0.77	72	46571	25	4	18	3	24
ASE_00204	RNaseP_bact_b links to Rfam database...	0.63	0.61	0.65	68	67792	41	7	29	5	44
ASE_00205	RNaseP_arch links to Rfam database...	0.46	0.47	0.46	42	45964	54	8	42	4	48
ASE_00209	RNaseP_arch links to Rfam database...	0.40	0.39	0.41	34	42989	48	5	43	0	54
ASE_00210	RNaseP_arch links to Rfam database...	0.47	0.48	0.47	31	27195	36	7	28	1	34
ASE_00212	RNaseP_bact_a links to Rfam database...	0.67	0.65	0.69	96	93822	48	4	39	5	52
ASE_00213	RNaseP_arch links to Rfam database...	0.73	0.73	0.73	48	27195	19	6	12	1	18
ASE_00214	RNaseP_bact_a links to Rfam database...	0.73	0.71	0.74	73	56182	32	4	21	7	30
ASE_00215	RNaseP_bact_a links to Rfam database...	0.40	0.38	0.42	38	48425	53	2	51	0	61
ASE_00216	RNaseP_bact_a links to Rfam database...	0.61	0.62	0.59	51	39254	36	7	28	1	31
ASE_00217	RNaseP_bact_a links to Rfam database...	0.42	0.39	0.46	35	40394	48	3	38	7	55
ASE_00221	RNaseP_bact_a links to Rfam database...	0.54	0.52	0.55	61	64510	53	1	48	4	56
ASE_00222	RNaseP_arch links to Rfam database...	0.46	0.46	0.46	72	111946	83	12	71	0	85
ASE_00227	RNaseP_bact_a links to Rfam database...	0.44	0.44	0.45	58	78874	72	11	60	1	75
ASE_00228	RNaseP_bact_a links to Rfam database...	0.60	0.63	0.58	54	46878	39	14	25	0	32
ASE_00229	RNaseP_bact_a links to Rfam database...	0.73	0.72	0.73	63	42400	28	5	18	5	24
ASE_00231	RNaseP_bact_a links to Rfam database...	0.65	0.67	0.64	64	47795	36	5	31	0	32
ASE_00232	RNaseP_bact_a links to Rfam database...	0.62	0.62	0.62	52	38419	33	4	28	1	32
ASE_00234	RNaseP_bact_a links to Rfam database...	0.36	0.34	0.38	44	75350	76	7	65	4	85
ASE_00237	RNaseP_nuc links to Rfam database...	0.00	0.00	0.00	0	45663	101	25	65	11	56
ASE_00238	RNaseP_bact_a links to Rfam database...	0.42	0.42	0.42	48	64146	70	6	61	3	66
ASE_00240	RNaseP_bact_a links to Rfam database...	0.66	0.65	0.67	60	46575	37	3	27	7	33
ASE_00241	RNaseP_bact_a links to Rfam database...	0.51	0.53	0.49	46	43862	48	10	38	0	41
ASE_00242	RNaseP_bact_a links to Rfam database...	0.46	0.46	0.47	51	60966	60	5	53	2	61
ASE_00246	RNaseP_nuc links to Rfam database...	0.29	0.34	0.25	23	48114	75	26	42	7	44
ASE_00247	RNaseP_nuc links to Rfam database...	0.17	0.19	0.15	12	54205	97	19	49	29	52
ASE_00248	RNaseP_bact_a links to Rfam database...	0.60	0.59	0.62	67	62373	45	1	40	4	47
ASE_00250	RNaseP_bact_a links to Rfam database...	0.82	0.82	0.83	107	78874	25	4	18	3	24
ASE_00252	RNaseP_bact_a links to Rfam database...	0.57	0.56	0.59	94	115281	70	8	57	5	74
ASE_00254	RNaseP_bact_a links to Rfam database...	0.41	0.40	0.42	33	36777	50	4	42	4	49
ASE_00255	RNaseP_bact_a links to Rfam database...	0.68	0.65	0.71	85	74571	41	3	32	6	45
ASE_00257	RNaseP_bact_a links to Rfam database...	0.56	0.56	0.57	54	50945	50	4	37	9	43
ASE_00259	RNaseP_bact_a links to Rfam database...	0.42	0.40	0.44	48	73043	65	9	53	3	73
ASE_00263	RNaseP_bact_a links to Rfam database...	0.76	0.77	0.76	92	70379	31	7	22	2	28
ASE_00264	RNaseP_nuc links to Rfam database...	0.81	0.75	0.87	75	49055	21	0	11	10	25
ASE_00267	RNaseP_bact_a links to Rfam database...	0.60	0.57	0.63	50	45071	37	4	25	8	38
ASE_00270	RNaseP_bact_a links to Rfam database...	0.74	0.71	0.76	91	72271	35	1	27	7	37
ASE_00274	RNaseP_bact_a links to Rfam database...	0.50	0.50	0.50	51	55510	50	10	40	0	52
ASE_00277	RNaseP_bact_a links to Rfam database...	0.46	0.47	0.44	43	48108	55	10	44	1	48
ASE_00279	RNaseP_bact_a links to Rfam database...	0.73	0.72	0.74	73	53202	33	3	23	7	28
ASE_00280	RNaseP_bact_a links to Rfam database...	0.67	0.66	0.68	65	51907	39	4	27	8	33
ASE_00281	RNaseP_bact_a links to Rfam database...	0.44	0.44	0.44	39	44462	51	5	45	1	49
ASE_00282	RNaseP_bact_a links to Rfam database...	0.44	0.44	0.45	56	77690	70	4	65	1	71
ASE_00283	RNaseP_bact_a links to Rfam database...	0.81	0.79	0.84	84	61676	25	2	14	9	23
ASE_00284	RNaseP_bact_a links to Rfam database...	0.51	0.50	0.51	54	58206	58	6	45	7	54
ASE_00285	RNaseP_bact_a links to Rfam database...	0.69	0.66	0.73	80	68896	38	2	28	8	42
ASE_00286	RNaseP_bact_a links to Rfam database...	0.49	0.49	0.50	45	46575	50	2	43	5	47
ASE_00287	RNaseP_bact_a links to Rfam database...	0.72	0.69	0.76	71	54852	32	2	21	9	32
ASE_00288	RNaseP_bact_a links to Rfam database...	0.44	0.43	0.45	40	45968	49	5	43	1	53
ASE_00289	RNaseP_bact_a links to Rfam database...	0.65	0.61	0.69	96	100886	48	4	39	5	61
ASE_00292	RNaseP_bact_a links to Rfam database...	0.63	0.60	0.66	83	81685	47	1	41	5	55
ASE_00294	RNaseP_bact_a links to Rfam database...	0.64	0.61	0.68	104	114329	52	0	48	4	67
ASE_00295	RNaseP_bact_a links to Rfam database...	0.47	0.45	0.49	59	73800	64	5	56	3	72
ASE_00296	RNaseP_bact_a links to Rfam database...	0.29	0.29	0.30	42	91664	100	6	94	0	103
ASE_00297	RNaseP_bact_a links to Rfam database...	0.66	0.66	0.65	65	52875	38	7	28	3	33
ASE_00298	RNaseP_bact_a links to Rfam database...	0.47	0.45	0.48	51	67422	60	9	46	5	62
ASE_00299	RNaseP_bact_a links to Rfam database...	0.59	0.59	0.58	59	49354	47	8	34	5	41
ASE_00313	RNaseP_nuc links to Rfam database...	0.72	0.72	0.72	64	62392	45	6	19	20	25
ASE_00316	RNaseP_nuc links to Rfam database...	0.53	0.57	0.50	56	107768	91	23	33	35	42
ASE_00318	RNaseP_bact_b links to Rfam database...	0.62	0.62	0.61	73	80081	50	14	32	4	45
ASE_00327	RNaseP_nuc links to Rfam database...	0.81	0.80	0.83	71	57205	35	1	14	20	18
ASE_00328	RNaseP_bact_b links to Rfam database...	0.41	0.41	0.41	46	72659	75	5	61	9	66
ASE_00330	RNaseP_nuc links to Rfam database...	0.70	0.71	0.70	64	56188	50	4	24	22	26
ASE_00332	RNaseP_bact_a links to Rfam database...	0.53	0.51	0.54	71	81678	63	2	59	2	67
ASE_00335	RNaseP_bact_b links to Rfam database...	0.42	0.42	0.42	49	75348	79	12	57	10	67
ASE_00337	RNaseP_nuc links to Rfam database...	0.46	0.49	0.43	35	39259	57	11	35	11	36
ASE_00338	RNaseP_nuc links to Rfam database...	0.48	0.47	0.50	46	66338	63	4	42	17	52
ASE_00339	RNaseP_bact_a links to Rfam database...	0.52	0.52	0.52	62	80081	69	6	51	12	57
ASE_00340	RNaseP_bact_a links to Rfam database...	0.76	0.75	0.76	64	45972	29	6	14	9	21
ASE_00342	RNaseP_bact_a links to Rfam database...	0.54	0.51	0.57	59	62377	48	2	43	3	56
ASE_00343	RNaseP_bact_a links to Rfam database...	0.55	0.57	0.53	64	83315	69	10	47	12	49
ASE_00346	RNaseP_arch links to Rfam database...	0.42	0.41	0.42	40	48110	59	4	51	4	57
ASE_00353	RNaseP_bact_a links to Rfam database...	0.50	0.51	0.49	55	57857	59	11	47	1	52
ASE_00359	RNaseP_arch links to Rfam database...	0.45	0.46	0.44	37	42693	55	3	45	7	43
ASE_00360	RNaseP_arch links to Rfam database...	0.31	0.32	0.31	21	29335	53	11	36	6	44
ASE_00361	RNaseP_bact_a links to Rfam database...	0.33	0.32	0.34	41	75346	82	10	69	3	86
ASE_00362	RNaseP_bact_a links to Rfam database...	0.57	0.57	0.57	52	48114	46	4	35	7	39
ASE_00363	RNaseP_bact_a links to Rfam database...	0.42	0.41	0.42	39	51267	60	2	52	6	55
ASE_00364	RNaseP_bact_a links to Rfam database...	0.54	0.54	0.55	57	54181	51	6	41	4	48
ASE_00366	RNaseP_bact_a links to Rfam database...	0.51	0.54	0.47	53	58541	60	10	49	1	45
ASE_00367	RNaseP_bact_a links to Rfam database...	0.31	0.31	0.30	27	42981	68	7	56	5	59
ASE_00369	RNaseP_bact_a links to Rfam database...	0.57	0.58	0.56	62	55835	48	3	45	0	45
ASE_00370	RNaseP_bact_a links to Rfam database...	0.62	0.63	0.61	53	41818	34	1	33	0	31
ASE_00372	RNaseP_bact_a links to Rfam database...	0.69	0.69	0.70	69	51904	34	5	25	4	31
ASE_00374	RNaseP_bact_a links to Rfam database...	0.65	0.66	0.64	58	44759	33	7	26	0	30
ASE_00375	RNaseP_bact_a links to Rfam database...	0.47	0.46	0.48	51	60271	59	4	52	3	59
ASE_00376	RNaseP_bact_a links to Rfam database...	0.52	0.51	0.52	54	56850	52	4	45	3	51
ASE_00377	RNaseP_bact_a links to Rfam database...	0.81	0.80	0.81	86	57524	26	3	17	6	21
ASE_00379	RNaseP_bact_a links to Rfam database...	0.61	0.61	0.61	54	45968	42	4	30	8	35
ASE_00380	RNaseP_bact_a links to Rfam database...	0.48	0.46	0.49	46	54852	54	2	46	6	53
ASE_00382	RNaseP_bact_a links to Rfam database...	0.40	0.40	0.40	34	41821	53	6	44	3	50
ASE_00383	RNaseP_bact_a links to Rfam database...	0.59	0.57	0.61	60	54517	43	3	35	5	45
ASE_00384	RNaseP_bact_a links to Rfam database...	0.68	0.70	0.67	64	48420	37	5	27	5	28
ASE_00385	RNaseP_bact_a links to Rfam database...	0.42	0.43	0.40	35	41818	53	6	46	1	46
ASE_00386	RNaseP_bact_a links to Rfam database...	0.54	0.56	0.52	54	50300	54	4	45	5	42
ASE_00387	RNaseP_bact_a links to Rfam database...	0.62	0.62	0.63	64	55844	43	1	36	6	40
ASE_00388	RNaseP_bact_a links to Rfam database...	0.61	0.63	0.60	56	45659	40	2	36	2	33
ASE_00390	RNaseP_bact_a links to Rfam database...	0.47	0.46	0.49	39	42116	50	6	34	10	46
ASE_00393	RNaseP_bact_a links to Rfam database...	0.53	0.53	0.54	49	47804	48	1	41	6	44
ASE_00394	RNaseP_bact_a links to Rfam database...	0.70	0.71	0.69	66	46875	32	3	27	2	27
ASE_00395	RNaseP_bact_a links to Rfam database...	0.55	0.55	0.56	46	41534	43	2	34	7	38
ASE_00396	RNaseP_bact_a links to Rfam database...	0.35	0.36	0.34	30	41529	62	11	46	5	53
ASE_00397	RNaseP_bact_a links to Rfam database...	0.50	0.50	0.50	53	54510	52	7	45	0	52
ASE_00398	RNaseP_bact_a links to Rfam database...	0.63	0.63	0.64	65	55844	40	2	34	4	39
ASE_00400	RNaseP_bact_a links to Rfam database...	0.56	0.56	0.56	59	57865	47	10	36	1	47
ASE_00401	RNaseP_bact_a links to Rfam database...	0.53	0.56	0.51	70	76892	66	13	53	0	56
ASE_00402	RNaseP_bact_a links to Rfam database...	0.43	0.42	0.43	36	42403	52	5	42	5	49
ASE_00403	RNaseP_bact_a links to Rfam database...	0.39	0.39	0.40	42	55839	64	3	61	0	65
ASE_00404	RNaseP_bact_a links to Rfam database...	0.35	0.35	0.36	30	42987	62	1	53	8	55
ASE_00406	RNaseP_bact_a links to Rfam database...	0.71	0.70	0.73	66	48737	27	8	17	2	28
ASE_00411	RNaseP_bact_a links to Rfam database...	0.30	0.30	0.31	27	49367	66	6	55	5	62
ASE_00412	RNaseP_bact_a links to Rfam database...	0.46	0.45	0.47	47	58210	57	9	45	3	58
ASE_00413	RNaseP_bact_a links to Rfam database...	0.56	0.59	0.54	48	44462	44	11	30	3	33
ASE_00414	RNaseP_bact_a links to Rfam database...	0.30	0.28	0.31	27	46273	67	4	56	7	68
ASE_00415	RNaseP_bact_a links to Rfam database...	0.48	0.50	0.47	51	54837	64	4	54	6	52
ASE_00416	RNaseP_bact_a links to Rfam database...	0.55	0.54	0.58	68	77303	56	9	41	6	59
ASE_00417	RNaseP_arch links to Rfam database...	0.44	0.45	0.43	45	54510	64	9	51	4	55
ASE_00418	RNaseP_arch links to Rfam database...	0.33	0.33	0.32	25	38704	54	5	47	2	50
ASE_00419	RNaseP_bact_a links to Rfam database...	0.73	0.73	0.74	75	54844	31	5	22	4	28
ASE_00422	RNaseP_bact_a links to Rfam database...	0.49	0.49	0.48	46	46876	55	5	44	6	48
ASE_00423	RNaseP_bact_a links to Rfam database...	0.59	0.58	0.60	63	56848	45	7	35	3	46
ASE_00426	RNaseP_bact_a links to Rfam database...	0.44	0.44	0.44	48	60967	61	6	54	1	60
ASE_00428	RNaseP_bact_a links to Rfam database...	0.68	0.66	0.70	82	76519	42	3	32	7	43
ASE_00430	RNaseP_bact_a links to Rfam database...	0.62	0.62	0.62	60	46874	42	7	30	5	37
ASE_00431	RNaseP_bact_a links to Rfam database...	0.56	0.55	0.57	52	46269	44	9	30	5	43
ASE_00434	RNaseP_bact_b links to Rfam database...	0.56	0.56	0.56	62	68154	57	10	39	8	48
ASE_00437	RNaseP_bact_a links to Rfam database...	0.44	0.42	0.46	57	79278	66	4	62	0	78
ASE_00438	RNaseP_bact_a links to Rfam database...	0.40	0.38	0.42	44	65960	62	6	56	0	72
ASE_00441	RNaseP_bact_a links to Rfam database...	0.77	0.74	0.81	83	64158	33	4	16	13	29
ASE_00447	RNaseP_bact_a links to Rfam database...	0.61	0.59	0.64	68	60272	43	2	36	5	48
ASE_00448	RNaseP_bact_a links to Rfam database...	0.51	0.50	0.52	56	64154	61	7	44	10	56
ASE_00451	RNaseP_bact_a links to Rfam database...	0.62	0.59	0.64	74	70761	44	1	40	3	51
CRW_00013	Intron_gpI links to Rfam database...	0.21	0.22	0.21	25	103620	117	13	82	22	90
CRW_00016	Intron_gpI links to Rfam database...	0.60	0.58	0.63	70	77309	55	5	37	13	50
CRW_00610	Intron_gpI links to Rfam database...	0.49	0.51	0.48	41	36230	44	9	35	0	40
CRW_00613	Intron_gpI links to Rfam database...	0.66	0.62	0.71	48	34912	28	1	19	8	30
CRW_00614	Intron_gpI links to Rfam database...	0.16	0.19	0.13	11	121684	137	27	49	61	46
CRW_00618	Intron_gpI links to Rfam database...	0.07	0.08	0.07	5	56205	92	15	55	22	56
CRW_00633	Intron_gpI links to Rfam database...	0.40	0.42	0.39	44	63434	70	10	58	2	62
CRW_00634	Intron_gpI links to Rfam database...	0.50	0.53	0.48	50	64516	59	11	43	5	44
CRW_00670	Intron_gpI links to Rfam database...	0.62	0.61	0.63	73	70009	45	9	34	2	47
CRW_00671	Intron_gpI links to Rfam database...	0.65	0.63	0.67	74	62725	43	1	35	7	43
CRW_00672	Intron_gpI links to Rfam database...	0.74	0.75	0.74	83	72278	38	6	23	9	28
CRW_00674	Intron_gpI links to Rfam database...	0.60	0.61	0.59	76	83308	55	10	42	3	48
CRW_00676	Intron_gpI links to Rfam database...	0.56	0.58	0.54	67	93403	71	15	43	13	48
CRW_00692	Intron_gpI links to Rfam database...	0.34	0.37	0.32	33	68532	80	22	48	10	57
PDB_00827	Intron_gpI links to Rfam database...	0.59	0.53	0.65	43	26962	24	3	20	1	38
PDB_00919	RNaseP_bact_a links to Rfam database...	0.52	0.49	0.55	50	44162	45	2	39	4	53
RFA_00597	Telomerase-vert links to Rfam database...	0.55	0.57	0.53	62	97786	78	17	38	23	47
RFA_00598	Telomerase-vert links to Rfam database...	0.27	0.28	0.26	28	84559	99	13	66	20	73
RFA_00599	Telomerase-vert links to Rfam database...	0.66	0.70	0.63	78	101351	67	17	29	21	33
RFA_00600	Telomerase-vert links to Rfam database...	0.52	0.58	0.46	58	120169	111	26	42	43	42
RFA_00601	Telomerase-vert links to Rfam database...	0.22	0.25	0.20	28	99098	124	19	90	15	86
RFA_00602	Telomerase-vert links to Rfam database...	0.49	0.52	0.47	60	101347	91	15	53	23	56
TMR_00173	tmRNA links to Rfam database...	0.31	0.36	0.27	15	42139	68	18	23	27	27
TMR_00357	tmRNA links to Rfam database...	0.38	0.40	0.37	37	82927	79	21	43	15	55
TMR_00601	tmRNA links to Rfam database...	0.35	0.38	0.33	16	58947	79	10	23	46	26
TMR_00696	tmRNA links to Rfam database...	0.20	0.22	0.19	25	84946	116	29	78	9	89

^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	7813
Total TN	16948351
Total FP	1979
Total FP CONTRA	258
Total FP INCONS	1540
Total FP COMP	181
Total FN	20895

Total Scores
MCC	0.470
Average MCC ± 95% Confidence Intervals	0.464 ± 0.014
Sensitivity	0.272
Positive Predictive Value	0.813
Nr of predictions	274

^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_00001	RNaseP_arch links to Rfam database...	0.77	0.59	1.00	44	34147	0	0	0	0	31
ASE_00002	RNaseP_arch links to Rfam database...	0.78	0.60	1.00	44	35467	0	0	0	0	29
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_00009	RNaseP_arch links to Rfam database...	0.74	0.60	0.93	40	26063	3	0	3	0	27
ASE_00012	RNaseP_bact_a links to Rfam database...	0.46	0.26	0.80	32	73880	11	1	7	3	91
ASE_00014	RNaseP_arch links to Rfam database...	0.70	0.52	0.95	55	54227	3	0	3	0	51
ASE_00017	RNaseP_nuc links to Rfam database...	0.51	0.31	0.83	20	51016	5	0	4	1	44
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_00023	RNaseP_bact_a links to Rfam database...	0.39	0.21	0.71	27	84217	13	1	10	2	100
ASE_00025	RNaseP_nuc links to Rfam database...	0.48	0.28	0.83	20	78582	5	0	4	1	51
ASE_00026	RNaseP_bact_a links to Rfam database...	0.49	0.31	0.77	34	59641	10	1	9	0	76
ASE_00028	RNaseP_bact_b links to Rfam database...	0.65	0.48	0.90	60	84599	12	1	6	5	66
ASE_00029	RNaseP_bact_a links to Rfam database...	0.30	0.14	0.65	17	83002	10	1	8	1	105
ASE_00030	RNaseP_bact_a links to Rfam database...	0.46	0.25	0.86	36	85449	6	1	5	0	109
ASE_00031	RNaseP_bact_a links to Rfam database...	0.37	0.20	0.68	25	86699	12	1	11	0	101
ASE_00032	RNaseP_bact_a links to Rfam database...	0.22	0.09	0.50	11	80178	12	1	10	1	107
ASE_00033	RNaseP_bact_a links to Rfam database...	0.48	0.29	0.81	35	64937	8	1	7	0	86
ASE_00035	RNaseP_bact_a links to Rfam database...	0.47	0.28	0.80	33	70459	11	1	7	3	85
ASE_00036	RNaseP_bact_a links to Rfam database...	0.41	0.22	0.78	29	75818	8	1	7	0	103
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_00046	RNaseP_bact_a links to Rfam database...	0.53	0.34	0.81	35	50360	8	1	7	0	68
ASE_00047	RNaseP_bact_a links to Rfam database...	0.36	0.20	0.67	26	74266	13	1	12	0	104
ASE_00052	RNaseP_bact_a links to Rfam database...	0.49	0.30	0.79	34	61382	9	1	8	0	78
ASE_00053	RNaseP_bact_a links to Rfam database...	0.42	0.23	0.79	30	79363	8	1	7	0	103
ASE_00057	RNaseP_bact_a links to Rfam database...	0.47	0.27	0.82	36	82171	8	1	7	0	98
ASE_00064	RNaseP_bact_a links to Rfam database...	0.44	0.25	0.79	22	45423	6	1	5	0	67
ASE_00066	RNaseP_bact_a links to Rfam database...	0.43	0.24	0.79	31	72351	8	1	7	0	99
ASE_00068	RNaseP_bact_a links to Rfam database...	0.37	0.20	0.68	17	37650	8	1	7	0	68
ASE_00069	RNaseP_bact_a links to Rfam database...	0.45	0.25	0.81	35	82985	9	1	7	1	105
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_00076	RNaseP_bact_a links to Rfam database...	0.39	0.19	0.79	23	68236	6	1	5	0	95
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_00079	RNaseP_bact_a links to Rfam database...	0.43	0.23	0.79	23	55582	6	1	5	0	77
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_00096	RNaseP_bact_a links to Rfam database...	0.40	0.20	0.79	23	63517	6	1	5	0	92
ASE_00099	RNaseP_bact_a links to Rfam database...	0.49	0.30	0.82	36	64576	8	1	7	0	84
ASE_00100	RNaseP_nuc links to Rfam database...	0.47	0.26	0.83	20	82191	5	0	4	1	56
ASE_00102	RNaseP_bact_a links to Rfam database...	0.36	0.18	0.71	30	117813	12	1	11	0	136
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_00108	RNaseP_nuc links to Rfam database...	0.51	0.32	0.83	20	46947	5	0	4	1	43
ASE_00111	RNaseP_nuc links to Rfam database...	0.52	0.32	0.86	18	50065	3	0	3	0	39
ASE_00112	RNaseP_bact_a links to Rfam database...	0.33	0.19	0.58	22	75428	16	1	15	0	94
ASE_00115	RNaseP_bact_a links to Rfam database...	0.41	0.22	0.79	22	54587	6	1	5	0	79
ASE_00116	RNaseP_arch links to Rfam database...	0.82	0.68	0.98	45	31580	1	0	1	0	21
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_00120	RNaseP_arch links to Rfam database...	0.76	0.59	0.98	55	46915	2	0	1	1	39
ASE_00121	RNaseP_arch links to Rfam database...	0.77	0.61	0.98	56	45093	1	0	1	0	36
ASE_00122	RNaseP_bact_a links to Rfam database...	0.45	0.26	0.79	23	43336	6	1	5	0	65
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_00132	RNaseP_bact_a links to Rfam database...	0.43	0.24	0.77	23	50373	7	2	5	0	72
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_00139	RNaseP_bact_a links to Rfam database...	0.42	0.22	0.79	23	54256	6	1	5	0	81
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_00145	RNaseP_arch links to Rfam database...	0.73	0.54	1.00	60	70065	0	0	0	0	51
ASE_00146	RNaseP_bact_a links to Rfam database...	0.49	0.29	0.82	36	70832	8	1	7	0	88
ASE_00148	RNaseP_arch links to Rfam database...	0.59	0.37	0.95	57	112515	3	0	3	0	97
ASE_00151	RNaseP_bact_a links to Rfam database...	0.55	0.37	0.82	36	51959	8	1	7	0	62
ASE_00153	RNaseP_nuc links to Rfam database...	0.37	0.21	0.68	15	57608	7	0	7	0	58
ASE_00154	RNaseP_arch links to Rfam database...	0.71	0.53	0.95	57	65281	3	0	3	0	50
ASE_00155	RNaseP_arch links to Rfam database...	0.65	0.42	1.00	60	93468	0	0	0	0	82
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_00168	RNaseP_nuc links to Rfam database...	0.51	0.31	0.83	20	60702	5	0	4	1	44
ASE_00169	RNaseP_bact_a links to Rfam database...	0.35	0.19	0.67	20	57261	10	2	8	0	87
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_00176	RNaseP_bact_a links to Rfam database...	0.41	0.21	0.79	23	60002	6	1	5	0	87
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_00187	RNaseP_arch links to Rfam database...	0.65	0.46	0.91	53	68577	5	1	4	0	62
ASE_00189	RNaseP_bact_b links to Rfam database...	0.66	0.52	0.84	53	63127	15	1	9	5	49
ASE_00190	RNaseP_bact_b links to Rfam database...	0.66	0.50	0.87	45	45399	12	1	6	5	45
ASE_00192	RNaseP_bact_b links to Rfam database...	0.48	0.32	0.70	43	84605	22	1	17	4	90
ASE_00194	RNaseP_bact_b links to Rfam database...	0.63	0.45	0.87	54	73474	13	1	7	5	65
ASE_00196	RNaseP_arch links to Rfam database...	0.77	0.63	0.96	47	31577	2	0	2	0	28
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_00204	RNaseP_bact_b links to Rfam database...	0.67	0.50	0.89	56	67833	13	1	6	6	56
ASE_00205	RNaseP_arch links to Rfam database...	0.77	0.60	1.00	54	46002	1	0	0	1	36
ASE_00209	RNaseP_arch links to Rfam database...	0.79	0.64	0.98	56	43014	1	0	1	0	32
ASE_00210	RNaseP_arch links to Rfam database...	0.68	0.55	0.84	36	27218	9	0	7	2	29
ASE_00212	RNaseP_bact_a links to Rfam database...	0.40	0.22	0.74	32	93918	11	1	10	0	116
ASE_00213	RNaseP_arch links to Rfam database...	0.78	0.62	0.98	41	27219	3	0	1	2	25
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_00222	RNaseP_arch links to Rfam database...	0.62	0.38	1.00	60	112041	0	0	0	0	97
ASE_00227	RNaseP_bact_a links to Rfam database...	0.37	0.20	0.68	27	78963	13	1	12	0	106
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_00237	RNaseP_nuc links to Rfam database...	0.52	0.32	0.86	18	45732	3	0	3	0	38
ASE_00238	RNaseP_bact_a links to Rfam database...	0.38	0.19	0.73	22	64231	8	3	5	0	92
ASE_00240	RNaseP_bact_a links to Rfam database...	0.33	0.18	0.59	17	46636	12	1	11	0	76
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_00246	RNaseP_nuc links to Rfam database...	0.57	0.33	1.00	22	48183	0	0	0	0	45
ASE_00247	RNaseP_nuc links to Rfam database...	0.51	0.31	0.83	20	54261	5	0	4	1	44
ASE_00248	RNaseP_bact_a links to Rfam database...	0.51	0.32	0.82	36	62437	8	1	7	0	78
ASE_00250	RNaseP_bact_a links to Rfam database...	0.47	0.27	0.81	35	78960	8	1	7	0	96
ASE_00252	RNaseP_bact_a links to Rfam database...	0.38	0.18	0.79	31	115401	12	1	7	4	137
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_00259	RNaseP_bact_a links to Rfam database...	0.47	0.27	0.80	33	73112	8	1	7	0	88
ASE_00263	RNaseP_bact_a links to Rfam database...	0.39	0.19	0.79	23	70471	6	1	5	0	97
ASE_00264	RNaseP_nuc links to Rfam database...	0.50	0.25	1.00	25	49116	0	0	0	0	75
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_00288	RNaseP_bact_a links to Rfam database...	0.43	0.25	0.77	23	46026	7	2	5	0	70
ASE_00289	RNaseP_bact_a links to Rfam database...	0.43	0.22	0.81	35	100982	8	1	7	0	122
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_00295	RNaseP_bact_a links to Rfam database...	0.47	0.27	0.82	36	73876	8	1	7	0	95
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_00299	RNaseP_bact_a links to Rfam database...	0.39	0.23	0.66	23	49420	12	1	11	0	77
ASE_00313	RNaseP_nuc links to Rfam database...	0.32	0.15	0.68	13	62462	8	2	4	2	76
ASE_00316	RNaseP_nuc links to Rfam database...	0.22	0.07	0.70	7	107870	4	0	3	1	91
ASE_00318	RNaseP_bact_b links to Rfam database...	0.66	0.48	0.89	57	80136	13	1	6	6	61
ASE_00327	RNaseP_nuc links to Rfam database...	0.45	0.21	0.95	19	57271	6	0	1	5	70
ASE_00328	RNaseP_bact_b links to Rfam database...	0.69	0.54	0.90	60	72704	12	1	6	5	52
ASE_00330	RNaseP_nuc links to Rfam database...	0.53	0.28	1.00	25	56255	0	0	0	0	65
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_00337	RNaseP_nuc links to Rfam database...	0.48	0.25	0.90	18	39320	7	0	2	5	53
ASE_00338	RNaseP_nuc links to Rfam database...	0.33	0.14	0.78	14	66412	4	0	4	0	84
ASE_00339	RNaseP_bact_a links to Rfam database...	0.48	0.29	0.81	34	80158	9	1	7	1	85
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_00343	RNaseP_bact_a links to Rfam database...	0.31	0.16	0.60	18	83406	12	2	10	0	95
ASE_00346	RNaseP_arch links to Rfam database...	0.57	0.44	0.74	43	48147	15	0	15	0	54
ASE_00353	RNaseP_bact_a links to Rfam database...	0.41	0.21	0.77	23	57940	7	2	5	0	84
ASE_00359	RNaseP_arch links to Rfam database...	0.73	0.55	0.98	44	42733	2	0	1	1	36
ASE_00360	RNaseP_arch links to Rfam database...	0.82	0.69	0.98	45	29357	1	0	1	0	20
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_00375	RNaseP_bact_a links to Rfam database...	0.41	0.21	0.79	23	60349	6	1	5	0	87
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_00380	RNaseP_bact_a links to Rfam database...	0.43	0.23	0.79	23	54917	6	1	5	0	76
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_00385	RNaseP_bact_a links to Rfam database...	0.43	0.26	0.72	21	41876	8	1	7	0	60
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_00414	RNaseP_bact_a links to Rfam database...	0.42	0.24	0.74	23	46329	8	3	5	0	72
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_00417	RNaseP_arch links to Rfam database...	0.76	0.59	0.98	59	54555	1	0	1	0	41
ASE_00418	RNaseP_arch links to Rfam database...	0.77	0.60	0.98	45	38735	1	0	1	0	30
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_00426	RNaseP_bact_a links to Rfam database...	0.25	0.13	0.48	14	61046	15	1	14	0	94
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_00431	RNaseP_bact_a links to Rfam database...	0.38	0.23	0.63	22	46325	13	3	10	0	73
ASE_00434	RNaseP_bact_b links to Rfam database...	0.64	0.50	0.82	55	68198	17	1	11	5	55
ASE_00437	RNaseP_bact_a links to Rfam database...	0.30	0.17	0.55	23	79359	19	1	18	0	112
ASE_00438	RNaseP_bact_a links to Rfam database...	0.39	0.20	0.77	23	66036	7	2	5	0	93
ASE_00441	RNaseP_bact_a links to Rfam database...	0.38	0.19	0.78	21	64234	7	1	5	1	91
ASE_00447	RNaseP_bact_a links to Rfam database...	0.50	0.31	0.82	36	60334	8	1	7	0	80
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
CRW_00013	Intron_gpI links to Rfam database...	0.46	0.23	0.90	27	103710	3	0	3	0	88
CRW_00016	Intron_gpI links to Rfam database...	0.45	0.23	0.90	27	77391	3	0	3	0	93
CRW_00610	Intron_gpI links to Rfam database...	0.54	0.31	0.96	25	36289	3	0	1	2	56
CRW_00613	Intron_gpI links to Rfam database...	0.42	0.22	0.81	17	34959	6	0	4	2	61
CRW_00614	Intron_gpI links to Rfam database...	0.45	0.32	0.64	18	121743	11	2	8	1	39
CRW_00618	Intron_gpI links to Rfam database...	0.39	0.26	0.59	16	56253	11	2	9	0	45
CRW_00633	Intron_gpI links to Rfam database...	0.40	0.21	0.76	22	63517	7	2	5	0	84
CRW_00634	Intron_gpI links to Rfam database...	0.37	0.18	0.74	17	64597	12	0	6	6	77
CRW_00670	Intron_gpI links to Rfam database...	0.48	0.24	0.97	29	70095	1	0	1	0	91
CRW_00671	Intron_gpI links to Rfam database...	0.49	0.25	0.97	29	62805	1	0	1	0	88
CRW_00672	Intron_gpI links to Rfam database...	0.50	0.26	0.97	29	72360	1	0	1	0	82
CRW_00674	Intron_gpI links to Rfam database...	0.29	0.14	0.63	17	83409	10	6	4	0	107
CRW_00676	Intron_gpI links to Rfam database...	0.32	0.15	0.68	17	93503	13	0	8	5	98
CRW_00692	Intron_gpI links to Rfam database...	0.34	0.17	0.68	15	68613	13	0	7	6	75
PDB_00827	Intron_gpI links to Rfam database...	0.35	0.21	0.59	17	26999	12	2	10	0	64
PDB_00919	RNaseP_bact_a links to Rfam database...	0.33	0.18	0.58	19	44220	16	1	13	2	84
RFA_00597	Telomerase-vert links to Rfam database...	0.71	0.61	0.84	66	97824	18	0	13	5	43
RFA_00598	Telomerase-vert links to Rfam database...	0.68	0.58	0.79	59	84591	25	0	16	9	42
RFA_00599	Telomerase-vert links to Rfam database...	0.79	0.66	0.95	73	101398	7	0	4	3	38
RFA_00600	Telomerase-vert links to Rfam database...	0.76	0.63	0.91	63	120226	15	0	6	9	37
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
TMR_00173	tmRNA links to Rfam database...	0.19	0.07	0.50	3	42189	9	0	3	6	39
TMR_00357	tmRNA links to Rfam database...	0.30	0.16	0.56	15	83001	12	3	9	0	77
TMR_00601	tmRNA links to Rfam database...	0.53	0.29	1.00	12	58984	9	0	0	9	30
TMR_00696	tmRNA links to Rfam database...	0.28	0.14	0.55	16	85049	13	0	13	0	98

^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 RNAsubopt - scored higher in this pairwise comparison

1. Total counts & total scores for RNAsubopt

2. Individual counts for RNAsubopt [ 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 ]