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)		PknotsRG
MCC	0.782	>	0.482
Average MCC ± 95% Confidence Intervals	0.742 ± 0.012	>	0.501 ± 0.019
Sensitivity	0.667	>	0.474
Positive Predictive Value	0.917	>	0.490
Total TP	28597	>	20336
Total TN	65129029	>	65118710
Total FP	3706	<	22986
Total FP CONTRA	628	<	2798
Total FP INCONS	1968	<	18378
Total FP COMP	1110	<	1810
Total FN	14305	<	22566
P-value	3.56938820447e-08

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Performance plots

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

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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	28597
Total TN	65129029
Total FP	3706
Total FP CONTRA	628
Total FP INCONS	1968
Total FP COMP	1110
Total FN	14305

Total Scores
MCC	0.782
Average MCC ± 95% Confidence Intervals	0.742 ± 0.012
Sensitivity	0.667
Positive Predictive Value	0.917
Nr of predictions	255

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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_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_00126	RNaseP_bact_a links to Rfam database...	0.80	0.65	1.00	53	40417	1	0	0	1	29
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_00183	RNaseP_bact_a links to Rfam database...	0.70	0.51	0.97	58	61365	2	1	1	0	55
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_00198	RNaseP_bact_a links to Rfam database...	0.76	0.60	0.97	61	52587	2	0	2	0	41
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
CRW_00024	SSU_rRNA_archaea links to Rfam database...	0.91	0.86	0.95	394	1085188	51	6	13	32	64
CRW_00034	SSU_rRNA_bacteria links to Rfam database...	0.83	0.77	0.90	365	1141911	54	9	31	14	109
CRW_00048	SSU_rRNA_bacteria links to Rfam database...	0.86	0.80	0.93	374	1170812	45	10	19	16	96
CRW_00054	SSU_rRNA_bacteria links to Rfam database...	0.86	0.80	0.93	364	1107423	43	10	19	14	92
CRW_00059	SSU_rRNA_bacteria links to Rfam database...	0.85	0.78	0.93	368	1172351	42	9	18	15	105
CRW_00061	SSU_rRNA_bacteria links to Rfam database...	0.86	0.80	0.92	380	1181542	47	10	21	16	96
CRW_00068	SSU_rRNA_bacteria links to Rfam database...	0.85	0.80	0.91	365	1108906	48	11	23	14	92
CRW_00096	SSU_rRNA_bacteria links to Rfam database...	0.86	0.78	0.95	363	1178497	43	4	16	23	102
CRW_00140	SSU_rRNA_bacteria links to Rfam database...	0.86	0.80	0.92	372	1135875	46	11	20	15	91
CRW_00141	SSU_rRNA_bacteria links to Rfam database...	0.85	0.78	0.93	371	1201625	47	10	19	18	105
CRW_00150	SSU_rRNA_bacteria links to Rfam database...	0.86	0.80	0.92	372	1152515	48	10	24	14	94
CRW_00152	SSU_rRNA_bacteria links to Rfam database...	0.84	0.77	0.91	364	1180015	52	13	24	15	107
CRW_00166	SSU_rRNA_bacteria links to Rfam database...	0.86	0.78	0.94	364	1190809	45	4	19	22	104
CRW_00173	SSU_rRNA_bacteria links to Rfam database...	0.80	0.75	0.86	332	1082272	67	11	41	15	113
CRW_00177	SSU_rRNA_bacteria links to Rfam database...	0.83	0.75	0.92	356	1178493	48	7	24	17	117
CRW_00196	SSU_rRNA_bacteria links to Rfam database...	0.86	0.79	0.94	377	1207832	45	8	18	19	98
CRW_00230	SSU_rRNA_bacteria links to Rfam database...	0.86	0.79	0.94	378	1198524	39	8	16	15	100
CRW_00245	SSU_rRNA_bacteria links to Rfam database...	0.87	0.81	0.93	367	1105932	46	9	20	17	86
CRW_00248	SSU_rRNA_bacteria links to Rfam database...	0.85	0.77	0.92	375	1218735	46	11	20	15	109
CRW_00250	SSU_rRNA_bacteria links to Rfam database...	0.84	0.77	0.92	370	1198524	46	11	21	14	108
CRW_00256	SSU_rRNA_bacteria links to Rfam database...	0.84	0.77	0.91	360	1192345	51	10	25	16	108
CRW_00270	SSU_rRNA_bacteria links to Rfam database...	0.86	0.80	0.92	362	1111893	46	11	20	15	93
CRW_00271	SSU_rRNA_bacteria links to Rfam database...	0.84	0.77	0.91	355	1122363	48	8	25	15	107
CRW_00273	SSU_rRNA_bacteria links to Rfam database...	0.86	0.79	0.92	354	1085218	46	8	21	17	92
CRW_00275	SSU_rRNA_bacteria links to Rfam database...	0.87	0.81	0.93	371	1114870	46	9	21	16	86
CRW_00277	SSU_rRNA_bacteria links to Rfam database...	0.85	0.78	0.91	354	1110408	50	12	21	17	99
CRW_00278	SSU_rRNA_bacteria links to Rfam database...	0.84	0.78	0.91	351	1129869	54	7	29	18	99
CRW_00279	SSU_rRNA_bacteria links to Rfam database...	0.84	0.77	0.92	357	1180030	50	8	21	21	107
CRW_00280	SSU_rRNA_bacteria links to Rfam database...	0.84	0.79	0.89	357	1117860	63	9	34	20	96
CRW_00281	SSU_rRNA_bacteria links to Rfam database...	0.84	0.77	0.92	357	1144951	49	9	24	16	107
CRW_00284	SSU_rRNA_bacteria links to Rfam database...	0.84	0.77	0.91	350	1131377	50	7	26	17	106
CRW_00285	SSU_rRNA_bacteria links to Rfam database...	0.83	0.77	0.90	353	1117869	56	11	27	18	105
CRW_00289	SSU_rRNA_bacteria links to Rfam database...	0.82	0.75	0.91	356	1189260	53	9	28	16	120
CRW_00466	SSU_rRNA_bacteria links to Rfam database...	0.86	0.79	0.93	364	1116372	45	9	20	16	94
CRW_00589	SSU_rRNA_bacteria links to Rfam database...	0.86	0.78	0.94	347	1094091	45	2	20	23	98
CRW_00590	SSU_rRNA_bacteria links to Rfam database...	0.86	0.79	0.93	359	1119369	53	3	25	25	93
CRW_00591	SSU_rRNA_bacteria links to Rfam database...	0.86	0.79	0.92	354	1098520	55	6	23	26	92
CRW_00772	SSU_rRNA_bacteria links to Rfam database...	0.79	0.73	0.85	295	945652	81	5	48	28	109
CRW_00789	SSU_rRNA_bacteria links to Rfam database...	0.83	0.76	0.91	340	1137411	63	5	30	28	107
CRW_00795	SSU_rRNA_bacteria links to Rfam database...	0.80	0.72	0.88	284	1152598	97	3	36	58	110
CRW_00849	SSU_rRNA_bacteria links to Rfam database...	0.82	0.76	0.88	357	1117854	65	10	39	16	113
CRW_00997	SSU_rRNA_bacteria links to Rfam database...	0.85	0.80	0.91	369	1135873	50	13	23	14	95
PDB_00571	tRNA links to Rfam database...	0.87	0.80	0.95	20	3300	1	1	0	0	5
PDB_00703	SSU_rRNA_bacteria links to Rfam database...	0.81	0.70	0.92	348	1073468	55	8	21	26	147
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
PDB_01120	SSU_rRNA_bacteria links to Rfam database...	0.79	0.68	0.92	357	1204739	53	7	25	21	170
PDB_01273	SSU_rRNA_bacteria links to Rfam database...	0.80	0.69	0.91	341	1117886	62	6	27	29	150
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 PknotsRG - scored lower in this pairwise comparison

1. Total counts & total scores for PknotsRG

Total Base Pair Counts
Total TP	20336
Total TN	65118710
Total FP	22986
Total FP CONTRA	2798
Total FP INCONS	18378
Total FP COMP	1810
Total FN	22566

Total Scores
MCC	0.482
Average MCC ± 95% Confidence Intervals	0.501 ± 0.019
Sensitivity	0.474
Positive Predictive Value	0.490
Nr of predictions	255

^top

2. Individual counts for PknotsRG [ 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...	0.70	0.71	0.70	69	47796	32	9	21	2	28
ASE_00005	RNaseP_bact_a links to Rfam database...	0.63	0.58	0.68	68	57870	38	0	32	6	49
ASE_00006	RNaseP_bact_a links to Rfam database...	0.57	0.58	0.57	54	47491	44	7	34	3	39
ASE_00007	RNaseP_bact_a links to Rfam database...	0.57	0.55	0.61	60	59586	43	1	38	4	50
ASE_00012	RNaseP_bact_a links to Rfam database...	0.58	0.54	0.61	67	73811	49	2	40	7	56
ASE_00018	RNaseP_bact_a links to Rfam database...	0.80	0.76	0.84	102	80479	22	3	17	2	32
ASE_00020	RNaseP_bact_a links to Rfam database...	0.53	0.52	0.53	66	73796	58	8	50	0	60
ASE_00021	RNaseP_bact_a links to Rfam database...	0.57	0.54	0.61	86	104056	61	7	47	7	74
ASE_00022	RNaseP_bact_b links to Rfam database...	0.46	0.44	0.48	54	82915	65	6	53	6	70
ASE_00028	RNaseP_bact_b links to Rfam database...	0.59	0.56	0.61	71	84550	53	4	41	8	55
ASE_00035	RNaseP_bact_a links to Rfam database...	0.30	0.28	0.32	33	70398	76	11	58	7	85
ASE_00037	RNaseP_bact_a links to Rfam database...	0.24	0.23	0.25	25	59239	79	3	73	3	85
ASE_00038	RNaseP_bact_a links to Rfam database...	0.55	0.54	0.56	55	53529	45	4	40	1	46
ASE_00040	RNaseP_bact_a links to Rfam database...	0.50	0.47	0.52	63	78882	64	5	53	6	70
ASE_00041	RNaseP_bact_a links to Rfam database...	0.52	0.50	0.55	54	57532	48	2	42	4	54
ASE_00042	RNaseP_bact_a links to Rfam database...	0.53	0.50	0.58	72	89975	54	3	50	1	73
ASE_00044	RNaseP_bact_a links to Rfam database...	0.69	0.68	0.70	71	54513	35	3	28	4	34
ASE_00064	RNaseP_bact_a links to Rfam database...	0.43	0.43	0.44	38	45364	53	5	44	4	51
ASE_00068	RNaseP_bact_a links to Rfam database...	0.24	0.24	0.25	20	37596	59	5	54	0	65
ASE_00074	RNaseP_bact_a links to Rfam database...	0.58	0.57	0.59	68	67781	47	6	41	0	51
ASE_00075	RNaseP_bact_a links to Rfam database...	0.65	0.59	0.71	96	108676	46	2	37	7	66
ASE_00077	RNaseP_bact_a links to Rfam database...	0.25	0.24	0.25	21	45067	67	7	55	5	65
ASE_00078	RNaseP_bact_a links to Rfam database...	0.68	0.67	0.68	56	42989	31	5	21	5	27
ASE_00080	RNaseP_bact_a links to Rfam database...	0.46	0.44	0.48	54	71519	61	5	53	3	69
ASE_00081	RNaseP_bact_a links to Rfam database...	0.53	0.53	0.54	51	49676	44	5	38	1	46
ASE_00082	RNaseP_bact_a links to Rfam database...	0.50	0.47	0.54	54	70400	60	1	45	14	62
ASE_00083	RNaseP_bact_a links to Rfam database...	0.79	0.75	0.83	82	62382	26	2	15	9	28
ASE_00084	RNaseP_bact_a links to Rfam database...	0.70	0.69	0.72	68	53534	29	6	20	3	31
ASE_00087	RNaseP_bact_a links to Rfam database...	0.61	0.58	0.65	83	88283	49	5	39	5	61
ASE_00090	RNaseP_bact_a links to Rfam database...	0.59	0.59	0.59	60	55509	47	2	40	5	41
ASE_00092	RNaseP_bact_a links to Rfam database...	0.73	0.70	0.76	79	63442	30	0	25	5	34
ASE_00099	RNaseP_bact_a links to Rfam database...	0.51	0.50	0.53	60	64506	56	6	48	2	60
ASE_00104	RNaseP_bact_a links to Rfam database...	0.65	0.63	0.68	75	64151	36	3	32	1	44
ASE_00105	RNaseP_bact_a links to Rfam database...	0.38	0.36	0.40	40	64160	66	9	52	5	71
ASE_00107	RNaseP_bact_a links to Rfam database...	0.47	0.45	0.50	57	73039	57	2	55	0	70
ASE_00115	RNaseP_bact_a links to Rfam database...	0.48	0.47	0.49	47	54520	56	1	47	8	54
ASE_00118	RNaseP_bact_a links to Rfam database...	0.45	0.44	0.45	45	60627	57	4	50	3	57
ASE_00119	RNaseP_bact_a links to Rfam database...	0.67	0.65	0.69	70	62734	33	1	30	2	38
ASE_00123	RNaseP_bact_a links to Rfam database...	0.40	0.39	0.42	33	38424	50	2	44	4	52
ASE_00125	RNaseP_bact_a links to Rfam database...	0.64	0.63	0.65	55	39255	30	4	26	0	33
ASE_00126	RNaseP_bact_a links to Rfam database...	0.79	0.79	0.78	65	40387	21	3	15	3	17
ASE_00128	RNaseP_bact_a links to Rfam database...	0.76	0.73	0.80	73	53210	25	2	16	7	27
ASE_00129	RNaseP_bact_a links to Rfam database...	0.52	0.50	0.53	56	62730	53	5	44	4	55
ASE_00131	RNaseP_bact_a links to Rfam database...	0.64	0.58	0.72	49	39272	29	0	19	10	36
ASE_00134	RNaseP_bact_a links to Rfam database...	0.56	0.57	0.55	54	50305	49	4	40	5	41
ASE_00135	RNaseP_bact_a links to Rfam database...	0.47	0.46	0.48	50	63085	59	8	47	4	59
ASE_00136	RNaseP_bact_a links to Rfam database...	0.49	0.47	0.51	43	48121	50	1	40	9	49
ASE_00137	RNaseP_bact_a links to Rfam database...	0.44	0.43	0.45	42	48423	53	5	46	2	56
ASE_00138	RNaseP_bact_a links to Rfam database...	0.53	0.52	0.55	42	40393	35	4	31	0	39
ASE_00140	RNaseP_bact_a links to Rfam database...	0.69	0.65	0.74	81	70767	33	3	25	5	44
ASE_00142	RNaseP_bact_a links to Rfam database...	0.74	0.70	0.79	85	67054	26	4	18	4	37
ASE_00146	RNaseP_bact_a links to Rfam database...	0.51	0.46	0.56	57	70775	47	0	44	3	67
ASE_00153	RNaseP_nuc links to Rfam database...	0.61	0.62	0.61	45	57556	71	2	27	42	28
ASE_00163	RNaseP_bact_a links to Rfam database...	0.29	0.29	0.30	27	53211	72	7	56	9	66
ASE_00165	RNaseP_bact_a links to Rfam database...	0.57	0.55	0.60	56	52881	39	7	31	1	45
ASE_00170	RNaseP_bact_a links to Rfam database...	0.70	0.68	0.72	63	48741	25	2	22	1	30
ASE_00171	RNaseP_bact_a links to Rfam database...	0.71	0.70	0.73	66	48425	25	5	20	0	28
ASE_00172	RNaseP_bact_a links to Rfam database...	0.68	0.66	0.70	70	58896	35	4	26	5	36
ASE_00174	RNaseP_bact_a links to Rfam database...	0.55	0.51	0.59	56	60980	39	3	36	0	53
ASE_00175	RNaseP_bact_a links to Rfam database...	0.44	0.44	0.45	47	59926	62	6	52	4	60
ASE_00179	RNaseP_bact_a links to Rfam database...	0.64	0.65	0.62	55	44164	34	7	27	0	29
ASE_00180	RNaseP_bact_a links to Rfam database...	0.72	0.69	0.75	69	51268	29	2	21	6	31
ASE_00181	RNaseP_bact_a links to Rfam database...	0.54	0.53	0.55	56	57528	50	3	43	4	50
ASE_00182	RNaseP_bact_a links to Rfam database...	0.49	0.47	0.51	64	84129	65	6	56	3	72
ASE_00183	RNaseP_bact_a links to Rfam database...	0.72	0.71	0.73	80	61316	33	2	27	4	33
ASE_00184	RNaseP_bact_a links to Rfam database...	0.63	0.64	0.63	65	54511	39	10	29	0	37
ASE_00185	RNaseP_bact_a links to Rfam database...	0.61	0.59	0.65	75	73420	43	5	36	2	53
ASE_00186	RNaseP_bact_a links to Rfam database...	0.74	0.70	0.78	92	78885	31	3	23	5	40
ASE_00190	RNaseP_bact_b links to Rfam database...	0.46	0.44	0.47	40	45366	45	8	37	0	50
ASE_00197	RNaseP_bact_a links to Rfam database...	0.48	0.46	0.51	66	89124	66	4	59	3	79
ASE_00198	RNaseP_bact_a links to Rfam database...	0.54	0.53	0.55	54	52551	45	6	39	0	48
ASE_00203	RNaseP_bact_a links to Rfam database...	0.70	0.68	0.72	65	46575	29	6	19	4	31
ASE_00212	RNaseP_bact_a links to Rfam database...	0.54	0.52	0.55	77	93822	66	5	57	4	71
ASE_00214	RNaseP_bact_a links to Rfam database...	0.78	0.76	0.80	78	56182	28	3	17	8	25
ASE_00215	RNaseP_bact_a links to Rfam database...	0.55	0.53	0.57	52	48425	42	4	35	3	47
ASE_00216	RNaseP_bact_a links to Rfam database...	0.60	0.61	0.60	50	39256	36	8	26	2	32
ASE_00217	RNaseP_bact_a links to Rfam database...	0.30	0.29	0.32	26	40388	60	6	50	4	64
ASE_00221	RNaseP_bact_a links to Rfam database...	0.40	0.38	0.42	45	64514	65	3	58	4	72
ASE_00228	RNaseP_bact_a links to Rfam database...	0.59	0.59	0.58	51	46883	37	14	23	0	35
ASE_00229	RNaseP_bact_a links to Rfam database...	0.58	0.57	0.59	50	42401	39	5	30	4	37
ASE_00231	RNaseP_bact_a links to Rfam database...	0.69	0.69	0.70	66	47801	28	5	23	0	30
ASE_00232	RNaseP_bact_a links to Rfam database...	0.56	0.55	0.57	46	38422	38	3	32	3	38
ASE_00234	RNaseP_bact_a links to Rfam database...	0.52	0.49	0.55	63	75351	56	2	50	4	66
ASE_00238	RNaseP_bact_a links to Rfam database...	0.48	0.47	0.50	54	64152	58	4	51	3	60
ASE_00241	RNaseP_bact_a links to Rfam database...	0.56	0.54	0.58	47	43875	43	0	34	9	40
ASE_00242	RNaseP_bact_a links to Rfam database...	0.72	0.68	0.76	76	60975	27	3	21	3	36
ASE_00248	RNaseP_bact_a links to Rfam database...	0.46	0.42	0.49	48	62384	49	3	46	0	66
ASE_00254	RNaseP_bact_a links to Rfam database...	0.61	0.60	0.63	49	36778	33	5	24	4	33
ASE_00255	RNaseP_bact_a links to Rfam database...	0.47	0.45	0.50	59	74572	60	7	53	0	71
ASE_00257	RNaseP_bact_a links to Rfam database...	0.64	0.64	0.65	62	50944	34	0	34	0	35
ASE_00263	RNaseP_bact_a links to Rfam database...	0.62	0.62	0.62	74	70380	47	5	41	1	46
ASE_00267	RNaseP_bact_a links to Rfam database...	0.46	0.44	0.48	39	45069	51	5	37	9	49
ASE_00270	RNaseP_bact_a links to Rfam database...	0.63	0.62	0.64	79	72267	45	8	36	1	49
ASE_00274	RNaseP_bact_a links to Rfam database...	0.48	0.47	0.50	48	55515	48	8	40	0	55
ASE_00277	RNaseP_bact_a links to Rfam database...	0.39	0.40	0.39	36	48113	58	9	47	2	55
ASE_00279	RNaseP_bact_a links to Rfam database...	0.38	0.36	0.41	36	53213	58	1	51	6	65
ASE_00280	RNaseP_bact_a links to Rfam database...	0.37	0.37	0.38	36	51908	62	6	53	3	62
ASE_00281	RNaseP_bact_a links to Rfam database...	0.54	0.51	0.58	45	44473	39	0	33	6	43
ASE_00282	RNaseP_bact_a links to Rfam database...	0.42	0.41	0.42	52	77692	72	6	65	1	75
ASE_00283	RNaseP_bact_a links to Rfam database...	0.74	0.73	0.76	78	61673	27	5	20	2	29
ASE_00284	RNaseP_bact_a links to Rfam database...	0.62	0.60	0.64	65	58210	43	4	32	7	43
ASE_00285	RNaseP_bact_a links to Rfam database...	0.62	0.58	0.66	71	68899	43	2	34	7	51
ASE_00286	RNaseP_bact_a links to Rfam database...	0.43	0.42	0.43	39	46574	61	3	49	9	53
ASE_00287	RNaseP_bact_a links to Rfam database...	0.59	0.55	0.63	57	54855	40	0	34	6	46
ASE_00292	RNaseP_bact_a links to Rfam database...	0.71	0.66	0.76	91	81690	34	4	25	5	47
ASE_00294	RNaseP_bact_a links to Rfam database...	0.78	0.74	0.83	127	114328	29	3	23	3	44
ASE_00296	RNaseP_bact_a links to Rfam database...	0.31	0.30	0.33	43	91677	88	8	78	2	102
ASE_00297	RNaseP_bact_a links to Rfam database...	0.53	0.53	0.54	52	52878	50	3	42	5	46
ASE_00298	RNaseP_bact_a links to Rfam database...	0.19	0.19	0.19	21	67420	90	9	78	3	92
ASE_00318	RNaseP_bact_b links to Rfam database...	0.64	0.61	0.67	72	80092	40	13	23	4	46
ASE_00328	RNaseP_bact_b links to Rfam database...	0.41	0.41	0.41	46	72659	73	3	63	7	66
ASE_00332	RNaseP_bact_a links to Rfam database...	0.54	0.51	0.57	71	81686	59	2	51	6	67
ASE_00335	RNaseP_bact_b links to Rfam database...	0.52	0.52	0.52	60	75350	64	13	43	8	56
ASE_00340	RNaseP_bact_a links to Rfam database...	0.71	0.72	0.71	61	45970	34	7	18	9	24
ASE_00342	RNaseP_bact_a links to Rfam database...	0.48	0.45	0.50	52	62378	51	1	50	0	63
ASE_00353	RNaseP_bact_a links to Rfam database...	0.46	0.47	0.45	50	57860	60	11	49	0	57
ASE_00361	RNaseP_bact_a links to Rfam database...	0.37	0.36	0.38	46	75345	78	9	66	3	81
ASE_00362	RNaseP_bact_a links to Rfam database...	0.62	0.62	0.63	56	48116	36	6	27	3	35
ASE_00363	RNaseP_bact_a links to Rfam database...	0.54	0.55	0.53	52	51262	46	5	41	0	42
ASE_00364	RNaseP_bact_a links to Rfam database...	0.32	0.31	0.33	33	54184	72	7	61	4	72
ASE_00366	RNaseP_bact_a links to Rfam database...	0.52	0.54	0.50	53	58547	55	12	41	2	45
ASE_00367	RNaseP_bact_a links to Rfam database...	0.33	0.35	0.32	30	42976	65	8	57	0	56
ASE_00369	RNaseP_bact_a links to Rfam database...	0.68	0.67	0.69	72	55841	37	2	30	5	35
ASE_00370	RNaseP_bact_a links to Rfam database...	0.65	0.63	0.66	53	41825	27	5	22	0	31
ASE_00372	RNaseP_bact_a links to Rfam database...	0.72	0.71	0.72	71	51905	30	5	22	3	29
ASE_00374	RNaseP_bact_a links to Rfam database...	0.56	0.56	0.57	49	44764	37	8	29	0	39
ASE_00376	RNaseP_bact_a links to Rfam database...	0.52	0.50	0.54	53	56855	48	4	41	3	52
ASE_00377	RNaseP_bact_a links to Rfam database...	0.69	0.66	0.72	71	57531	34	3	25	6	36
ASE_00379	RNaseP_bact_a links to Rfam database...	0.44	0.44	0.45	39	45969	55	7	41	7	50
ASE_00382	RNaseP_bact_a links to Rfam database...	0.51	0.51	0.52	43	41822	43	6	34	3	41
ASE_00383	RNaseP_bact_a links to Rfam database...	0.44	0.43	0.45	45	54516	59	4	50	5	60
ASE_00384	RNaseP_bact_a links to Rfam database...	0.73	0.71	0.75	65	48429	27	4	18	5	27
ASE_00386	RNaseP_bact_a links to Rfam database...	0.53	0.53	0.53	51	50306	51	4	42	5	45
ASE_00387	RNaseP_bact_a links to Rfam database...	0.36	0.37	0.35	38	55837	70	6	64	0	66
ASE_00388	RNaseP_bact_a links to Rfam database...	0.68	0.67	0.69	60	45666	32	1	26	5	29
ASE_00390	RNaseP_bact_a links to Rfam database...	0.50	0.48	0.53	41	42117	44	6	31	7	44
ASE_00393	RNaseP_bact_a links to Rfam database...	0.36	0.34	0.38	32	47810	59	3	50	6	61
ASE_00394	RNaseP_bact_a links to Rfam database...	0.72	0.72	0.73	67	46879	28	3	22	3	26
ASE_00395	RNaseP_bact_a links to Rfam database...	0.51	0.49	0.53	41	41539	45	1	35	9	43
ASE_00396	RNaseP_bact_a links to Rfam database...	0.37	0.36	0.38	30	41536	55	5	45	5	53
ASE_00397	RNaseP_bact_a links to Rfam database...	0.52	0.51	0.52	54	54511	50	7	43	0	51
ASE_00398	RNaseP_bact_a links to Rfam database...	0.64	0.62	0.66	64	55848	36	1	32	3	40
ASE_00400	RNaseP_bact_a links to Rfam database...	0.53	0.52	0.54	55	57868	48	5	42	1	51
ASE_00401	RNaseP_bact_a links to Rfam database...	0.55	0.56	0.54	70	76898	60	13	47	0	56
ASE_00402	RNaseP_bact_a links to Rfam database...	0.60	0.59	0.61	50	42404	35	4	28	3	35
ASE_00403	RNaseP_bact_a links to Rfam database...	0.47	0.44	0.50	47	55851	51	3	44	4	60
ASE_00404	RNaseP_bact_a links to Rfam database...	0.56	0.55	0.56	47	42987	42	0	37	5	38
ASE_00406	RNaseP_bact_a links to Rfam database...	0.69	0.66	0.72	62	48742	33	2	22	9	32
ASE_00411	RNaseP_bact_a links to Rfam database...	0.26	0.27	0.26	24	49362	69	12	57	0	65
ASE_00412	RNaseP_bact_a links to Rfam database...	0.38	0.37	0.39	39	58212	60	13	47	0	66
ASE_00413	RNaseP_bact_a links to Rfam database...	0.46	0.49	0.43	40	44457	54	14	40	0	41
ASE_00415	RNaseP_bact_a links to Rfam database...	0.51	0.51	0.51	53	54843	52	7	43	2	50
ASE_00416	RNaseP_bact_a links to Rfam database...	0.71	0.68	0.75	86	77306	36	1	28	7	41
ASE_00419	RNaseP_bact_a links to Rfam database...	0.76	0.73	0.80	75	54852	23	4	15	4	28
ASE_00422	RNaseP_bact_a links to Rfam database...	0.48	0.47	0.49	44	46881	51	5	41	5	50
ASE_00423	RNaseP_bact_a links to Rfam database...	0.49	0.49	0.50	53	56847	56	9	44	3	56
ASE_00428	RNaseP_bact_a links to Rfam database...	0.54	0.52	0.57	65	76521	54	5	45	4	60
ASE_00430	RNaseP_bact_a links to Rfam database...	0.63	0.61	0.66	59	46881	36	5	26	5	38
ASE_00437	RNaseP_bact_a links to Rfam database...	0.42	0.41	0.44	55	79275	71	4	67	0	80
ASE_00441	RNaseP_bact_a links to Rfam database...	0.78	0.74	0.83	83	64161	28	1	16	11	29
ASE_00448	RNaseP_bact_a links to Rfam database...	0.22	0.22	0.23	25	64151	91	6	79	6	87
ASE_00451	RNaseP_bact_a links to Rfam database...	0.50	0.47	0.52	59	70763	57	3	51	3	66
CRW_00024	SSU_rRNA_archaea links to Rfam database...	0.77	0.76	0.79	348	1085160	130	18	75	37	110
CRW_00034	SSU_rRNA_bacteria links to Rfam database...	0.63	0.63	0.63	300	1141843	196	31	142	23	174
CRW_00048	SSU_rRNA_bacteria links to Rfam database...	0.45	0.45	0.45	210	1170748	276	27	230	19	260
CRW_00054	SSU_rRNA_bacteria links to Rfam database...	0.53	0.52	0.54	236	1107378	216	34	168	14	220
CRW_00059	SSU_rRNA_bacteria links to Rfam database...	0.50	0.49	0.51	233	1172293	234	28	192	14	240
CRW_00061	SSU_rRNA_bacteria links to Rfam database...	0.43	0.44	0.43	208	1181469	284	32	244	8	268
CRW_00068	SSU_rRNA_bacteria links to Rfam database...	0.33	0.33	0.34	152	1108852	312	37	264	11	305
CRW_00096	SSU_rRNA_bacteria links to Rfam database...	0.55	0.55	0.55	255	1178420	227	21	184	22	210
CRW_00140	SSU_rRNA_bacteria links to Rfam database...	0.64	0.64	0.65	296	1135820	182	22	140	20	167
CRW_00141	SSU_rRNA_bacteria links to Rfam database...	0.51	0.50	0.52	238	1201566	240	29	192	19	238
CRW_00150	SSU_rRNA_bacteria links to Rfam database...	0.41	0.41	0.42	190	1152467	282	34	230	18	276
CRW_00152	SSU_rRNA_bacteria links to Rfam database...	0.51	0.50	0.52	236	1179961	240	37	182	21	235
CRW_00166	SSU_rRNA_bacteria links to Rfam database...	0.53	0.52	0.54	242	1190746	234	25	183	26	226
CRW_00173	SSU_rRNA_bacteria links to Rfam database...	0.29	0.29	0.29	128	1082212	325	37	279	9	317
CRW_00177	SSU_rRNA_bacteria links to Rfam database...	0.42	0.41	0.42	196	1178413	284	31	240	13	277
CRW_00196	SSU_rRNA_bacteria links to Rfam database...	0.47	0.46	0.47	220	1207767	270	26	222	22	255
CRW_00230	SSU_rRNA_bacteria links to Rfam database...	0.55	0.54	0.57	260	1198467	221	30	169	22	218
CRW_00245	SSU_rRNA_bacteria links to Rfam database...	0.35	0.35	0.34	157	1105872	312	45	254	13	296
CRW_00248	SSU_rRNA_bacteria links to Rfam database...	0.57	0.57	0.58	275	1218668	230	24	174	32	209
CRW_00250	SSU_rRNA_bacteria links to Rfam database...	0.43	0.43	0.43	205	1198449	287	30	242	15	273
CRW_00256	SSU_rRNA_bacteria links to Rfam database...	0.45	0.44	0.46	206	1192291	257	41	202	14	262
CRW_00270	SSU_rRNA_bacteria links to Rfam database...	0.38	0.37	0.39	168	1111857	279	39	222	18	287
CRW_00271	SSU_rRNA_bacteria links to Rfam database...	0.49	0.48	0.50	220	1122307	239	36	188	15	242
CRW_00273	SSU_rRNA_bacteria links to Rfam database...	0.51	0.50	0.51	222	1085169	227	31	179	17	224
CRW_00275	SSU_rRNA_bacteria links to Rfam database...	0.42	0.42	0.43	193	1114817	278	26	235	17	264
CRW_00277	SSU_rRNA_bacteria links to Rfam database...	0.25	0.25	0.24	113	1110332	354	55	295	4	340
CRW_00278	SSU_rRNA_bacteria links to Rfam database...	0.41	0.40	0.42	180	1129825	270	35	216	19	270
CRW_00279	SSU_rRNA_bacteria links to Rfam database...	0.29	0.29	0.30	134	1179968	334	40	274	20	330
CRW_00280	SSU_rRNA_bacteria links to Rfam database...	0.50	0.50	0.51	226	1117813	234	28	193	13	227
CRW_00281	SSU_rRNA_bacteria links to Rfam database...	0.30	0.30	0.30	138	1144878	340	40	285	15	326
CRW_00284	SSU_rRNA_bacteria links to Rfam database...	0.26	0.25	0.26	115	1131320	336	35	290	11	341
CRW_00285	SSU_rRNA_bacteria links to Rfam database...	0.47	0.47	0.47	214	1117807	257	31	208	18	244
CRW_00289	SSU_rRNA_bacteria links to Rfam database...	0.45	0.44	0.46	209	1189197	272	34	213	25	267
CRW_00466	SSU_rRNA_bacteria links to Rfam database...	0.61	0.60	0.62	273	1116325	194	25	142	27	185
CRW_00589	SSU_rRNA_bacteria links to Rfam database...	0.22	0.21	0.22	95	1094029	351	37	299	15	350
CRW_00590	SSU_rRNA_bacteria links to Rfam database...	0.32	0.31	0.33	141	1119330	303	41	244	18	311
CRW_00591	SSU_rRNA_bacteria links to Rfam database...	0.61	0.60	0.62	267	1098475	190	19	142	29	179
CRW_00772	SSU_rRNA_bacteria links to Rfam database...	0.24	0.24	0.25	97	945607	320	41	255	24	307
CRW_00789	SSU_rRNA_bacteria links to Rfam database...	0.35	0.35	0.35	156	1137342	304	48	240	16	291
CRW_00795	SSU_rRNA_bacteria links to Rfam database...	0.24	0.25	0.23	98	1152503	357	51	269	37	296
CRW_00849	SSU_rRNA_bacteria links to Rfam database...	0.48	0.48	0.49	225	1117798	260	25	212	23	245
CRW_00997	SSU_rRNA_bacteria links to Rfam database...	0.52	0.52	0.52	239	1135819	238	24	196	18	225
PDB_00571	tRNA links to Rfam database...	0.17	0.16	0.19	4	3300	17	6	11	0	21
PDB_00703	SSU_rRNA_bacteria links to Rfam database...	0.50	0.48	0.53	239	1073392	239	21	193	25	256
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...	0.23	0.22	0.26	5	2259	14	2	12	0	18
PDB_01073	SAM links to Rfam database...	0.75	0.65	0.88	22	4346	4	0	3	1	12
PDB_01105	SSU_rRNA_bacteria links to Rfam database...	0.51	0.50	0.52	269	1433453	278	27	222	29	271
PDB_01120	SSU_rRNA_bacteria links to Rfam database...	0.48	0.45	0.51	239	1204657	247	27	205	15	288
PDB_01273	SSU_rRNA_bacteria links to Rfam database...	0.47	0.46	0.49	225	1117799	263	23	213	27	266
RFA_00599	Telomerase-vert links to Rfam database...	0.63	0.68	0.60	75	101349	70	18	33	19	36
RFA_00601	Telomerase-vert links to Rfam database...	0.48	0.50	0.46	57	99111	86	21	46	19	57
RFA_00602	Telomerase-vert links to Rfam database...	0.69	0.72	0.67	83	101351	61	10	31	20	33
TMR_00017	tmRNA links to Rfam database...	0.36	0.37	0.36	38	67055	74	15	53	6	64
TMR_00018	tmRNA links to Rfam database...	0.30	0.32	0.30	29	64522	75	10	59	6	63
TMR_00038	tmRNA links to Rfam database...	0.24	0.25	0.24	27	71141	89	12	73	4	83
TMR_00042	tmRNA links to Rfam database...	0.24	0.24	0.24	24	62735	79	9	67	3	74
TMR_00046	tmRNA links to Rfam database...	0.54	0.55	0.54	53	62736	49	11	35	3	43
TMR_00048	tmRNA links to Rfam database...	0.32	0.34	0.30	32	64875	78	9	64	5	63
TMR_00080	tmRNA links to Rfam database...	0.59	0.61	0.56	59	70395	49	16	30	3	37
TMR_00082	tmRNA links to Rfam database...	0.63	0.64	0.63	61	67799	41	12	24	5	35
TMR_00123	tmRNA links to Rfam database...	0.46	0.47	0.46	47	66327	57	11	45	1	54
TMR_00137	tmRNA links to Rfam database...	0.27	0.28	0.26	25	60980	78	14	56	8	64
TMR_00142	tmRNA links to Rfam database...	0.45	0.47	0.44	48	70767	70	15	46	9	54
TMR_00207	tmRNA links to Rfam database...	0.36	0.35	0.36	36	72291	70	4	59	7	67
TMR_00257	tmRNA links to Rfam database...	0.25	0.24	0.26	24	67068	73	8	61	4	74
TMR_00271	tmRNA links to Rfam database...	0.49	0.48	0.49	44	64171	54	8	38	8	47
TMR_00332	tmRNA links to Rfam database...	0.39	0.38	0.40	38	67065	62	9	49	4	61
TMR_00366	tmRNA links to Rfam database...	0.28	0.28	0.29	28	67798	83	12	58	13	72
TMR_00378	tmRNA links to Rfam database...	0.29	0.30	0.28	29	67791	87	7	69	11	68
TMR_00399	tmRNA links to Rfam database...	0.16	0.17	0.15	16	64871	97	27	66	4	78
TMR_00404	tmRNA links to Rfam database...	0.28	0.30	0.26	28	67421	90	22	57	11	64
TMR_00427	tmRNA links to Rfam database...	0.31	0.31	0.31	30	67432	71	11	55	5	67
TMR_00443	tmRNA links to Rfam database...	0.45	0.45	0.46	47	67058	58	14	42	2	57
TMR_00451	tmRNA links to Rfam database...	0.17	0.19	0.16	17	63441	88	16	72	0	72
TMR_00458	tmRNA links to Rfam database...	0.20	0.20	0.20	19	63449	85	19	59	7	74
TMR_00469	tmRNA links to Rfam database...	0.40	0.41	0.38	41	64513	66	11	55	0	59
TMR_00472	tmRNA links to Rfam database...	0.36	0.38	0.35	37	64514	72	24	45	3	60
TMR_00519	tmRNA links to Rfam database...	0.14	0.15	0.13	14	63086	100	16	74	10	81
TMR_00520	tmRNA links to Rfam database...	0.36	0.37	0.35	37	63085	78	13	55	10	62
TMR_00522	tmRNA links to Rfam database...	0.36	0.36	0.36	35	63092	72	11	52	9	62
TMR_00528	tmRNA links to Rfam database...	0.13	0.13	0.12	13	63082	105	12	83	10	84
TMR_00540	tmRNA links to Rfam database...	0.45	0.45	0.46	47	73433	65	4	52	9	57
TMR_00568	tmRNA links to Rfam database...	0.59	0.59	0.60	58	60630	47	3	35	9	41
TMR_00571	tmRNA links to Rfam database...	0.59	0.60	0.58	59	60625	47	7	35	5	40
TMR_00580	tmRNA links to Rfam database...	0.32	0.31	0.32	31	60630	70	13	52	5	69
TMR_00584	tmRNA links to Rfam database...	0.40	0.42	0.38	41	60967	72	8	59	5	56
TMR_00586	tmRNA links to Rfam database...	0.23	0.25	0.22	24	60964	88	18	69	1	73
TMR_00616	tmRNA links to Rfam database...	0.37	0.37	0.36	37	67058	71	18	48	5	62
TMR_00699	tmRNA links to Rfam database...	0.41	0.41	0.41	42	67059	63	10	50	3	60
TMR_00702	tmRNA links to Rfam database...	0.28	0.29	0.28	29	67057	80	18	57	5	71
TMR_00703	tmRNA links to Rfam database...	0.31	0.31	0.31	31	67427	74	16	54	4	68

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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 PknotsRG - scored lower in this pairwise comparison

1. Total counts & total scores for PknotsRG

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