CompaRNA - on-line benchmarks of RNA structure prediction methods

Laboratory of Structural Bioinformatics @ Adam Mickiewicz University in Poznan

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Overview

Metric	MXScarna(seed)		CMfinder(20)
MCC	0.656	>	0.505
Average MCC ± 95% Confidence Intervals	0.659 ± 0.021	>	0.511 ± 0.017
Sensitivity	0.543	>	0.331
Positive Predictive Value	0.795	>	0.770
Total TP	9567	>	5838
Total TN	9832518	<	9836981
Total FP	3067	>	1876
Total FP CONTRA	380	>	115
Total FP INCONS	2093	>	1624
Total FP COMP	594	>	137
Total FN	8059	<	11788
P-value	3.56938820447e-08

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Performance plots

Comparison of performance of MXScarna(seed) and CMfinder(20). Positive Predictive Value (PPV) is plotted against sensitivity. Each dot represents a single test of each method. See tables below for raw data (individual counts for MXScarna(seed) and CMfinder(20)).
Average Matthews Correlation Coefficients (MCC) with 95% confidence intervals (CIs) were plotted for different RNA families, for which at least 3 members were present in the benchmarking dataset. 'n' denotes the number of MCCs used to calculate the average and CI. See tables below for raw data (individual counts for MXScarna(seed) and CMfinder(20)).
Comparison of average Matthews Correlation Coefficients (MCCs) for MXScarna(seed) and CMfinder(20). The whiskers correspond to 95% confidence intervals (CIs). 'n' denotes the number of MCCs used to calculate average MCCs and CIs. See tables below for raw data (individual counts for MXScarna(seed) and CMfinder(20)).

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Performance of MXScarna(seed) - scored higher in this pairwise comparison

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

Total Base Pair Counts
Total TP	9567
Total TN	9832518
Total FP	3067
Total FP CONTRA	380
Total FP INCONS	2093
Total FP COMP	594
Total FN	8059

Total Scores
MCC	0.656
Average MCC ± 95% Confidence Intervals	0.659 ± 0.021
Sensitivity	0.543
Positive Predictive Value	0.795
Nr of predictions	168

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

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
ASE_00004	RNaseP_bact_a links to Rfam database...	0.52	0.41	0.65	40	47833	24	4	18	2	57
ASE_00005	RNaseP_bact_a links to Rfam database...	0.72	0.57	0.92	67	57897	8	2	4	2	50
ASE_00006	RNaseP_bact_a links to Rfam database...	0.51	0.41	0.63	38	47526	25	3	19	3	55
ASE_00007	RNaseP_bact_a links to Rfam database...	0.82	0.75	0.90	83	59593	12	4	5	3	27
ASE_00012	RNaseP_bact_a links to Rfam database...	0.64	0.55	0.75	68	73829	26	4	19	3	55
ASE_00018	RNaseP_bact_a links to Rfam database...	0.77	0.64	0.91	86	80507	11	2	6	3	48
ASE_00020	RNaseP_bact_a links to Rfam database...	0.50	0.36	0.71	45	73857	21	6	12	3	81
ASE_00021	RNaseP_bact_a links to Rfam database...	0.49	0.36	0.66	57	104110	34	4	25	5	103
ASE_00022	RNaseP_bact_b links to Rfam database...	0.66	0.58	0.75	72	82932	31	5	19	7	52
ASE_00028	RNaseP_bact_b links to Rfam database...	0.69	0.60	0.78	76	84569	29	5	16	8	50
ASE_00035	RNaseP_bact_a links to Rfam database...	0.75	0.66	0.86	78	70409	18	3	10	5	40
ASE_00037	RNaseP_bact_a links to Rfam database...	0.86	0.79	0.94	87	59247	9	2	4	3	23
ASE_00038	RNaseP_bact_a links to Rfam database...	0.69	0.56	0.84	57	53560	14	1	10	3	44
ASE_00040	RNaseP_bact_a links to Rfam database...	0.69	0.59	0.80	78	78906	22	4	15	3	55
ASE_00041	RNaseP_bact_a links to Rfam database...	0.80	0.72	0.90	78	57543	12	2	7	3	30
ASE_00042	RNaseP_bact_a links to Rfam database...	0.68	0.52	0.87	76	90013	14	1	10	3	69
ASE_00044	RNaseP_bact_a links to Rfam database...	0.85	0.78	0.93	82	54527	9	3	3	3	23
ASE_00064	RNaseP_bact_a links to Rfam database...	0.82	0.71	0.94	63	45384	7	1	3	3	26
ASE_00068	RNaseP_bact_a links to Rfam database...	0.67	0.52	0.88	44	37625	8	1	5	2	41
ASE_00074	RNaseP_bact_a links to Rfam database...	0.81	0.70	0.94	83	67808	9	2	3	4	36
ASE_00075	RNaseP_bact_a links to Rfam database...	0.49	0.35	0.69	56	108730	31	3	22	6	106
ASE_00077	RNaseP_bact_a links to Rfam database...	0.77	0.70	0.85	60	45079	14	4	7	3	26
ASE_00078	RNaseP_bact_a links to Rfam database...	0.79	0.72	0.87	60	43002	13	2	7	4	23
ASE_00080	RNaseP_bact_a links to Rfam database...	0.37	0.30	0.47	37	71552	44	6	36	2	86
ASE_00081	RNaseP_bact_a links to Rfam database...	0.76	0.67	0.87	65	49695	13	2	8	3	32
ASE_00082	RNaseP_bact_a links to Rfam database...	0.35	0.24	0.50	28	70444	31	1	27	3	88
ASE_00083	RNaseP_bact_a links to Rfam database...	0.71	0.56	0.89	62	62411	11	1	7	3	48
ASE_00084	RNaseP_bact_a links to Rfam database...	0.71	0.59	0.85	58	53560	14	1	9	4	41
ASE_00087	RNaseP_bact_a links to Rfam database...	0.31	0.21	0.46	30	88345	36	0	35	1	114
ASE_00090	RNaseP_bact_a links to Rfam database...	0.66	0.54	0.81	55	55543	16	2	11	3	46
ASE_00092	RNaseP_bact_a links to Rfam database...	0.56	0.43	0.73	49	63479	21	2	16	3	64
ASE_00099	RNaseP_bact_a links to Rfam database...	0.83	0.73	0.96	87	64529	7	2	2	3	33
ASE_00104	RNaseP_bact_a links to Rfam database...	0.82	0.73	0.93	87	64167	10	2	5	3	32
ASE_00105	RNaseP_bact_a links to Rfam database...	0.51	0.38	0.70	42	64201	21	5	13	3	69
ASE_00107	RNaseP_bact_a links to Rfam database...	0.78	0.68	0.91	86	73058	12	2	7	3	41
ASE_00115	RNaseP_bact_a links to Rfam database...	0.54	0.43	0.68	43	54552	23	1	19	3	58
ASE_00118	RNaseP_bact_a links to Rfam database...	0.39	0.30	0.50	31	60664	34	3	28	3	71
ASE_00119	RNaseP_bact_a links to Rfam database...	0.30	0.24	0.38	26	62767	43	2	40	1	82
ASE_00123	RNaseP_bact_a links to Rfam database...	0.67	0.53	0.85	45	38450	10	2	6	2	40
ASE_00125	RNaseP_bact_a links to Rfam database...	0.68	0.51	0.90	45	39290	7	1	4	2	43
ASE_00128	RNaseP_bact_a links to Rfam database...	0.66	0.54	0.82	54	53235	15	1	11	3	46
ASE_00129	RNaseP_bact_a links to Rfam database...	0.68	0.53	0.88	59	62768	11	1	7	3	52
ASE_00131	RNaseP_bact_a links to Rfam database...	0.63	0.47	0.83	40	39292	10	1	7	2	45
ASE_00134	RNaseP_bact_a links to Rfam database...	0.73	0.62	0.86	59	50334	13	1	9	3	36
ASE_00135	RNaseP_bact_a links to Rfam database...	0.40	0.32	0.51	35	63121	35	4	30	1	74
ASE_00136	RNaseP_bact_a links to Rfam database...	0.78	0.67	0.91	62	48137	9	1	5	3	30
ASE_00137	RNaseP_bact_a links to Rfam database...	0.53	0.43	0.66	42	48452	25	2	20	3	56
ASE_00138	RNaseP_bact_a links to Rfam database...	0.73	0.63	0.85	51	40410	13	3	6	4	30
ASE_00140	RNaseP_bact_a links to Rfam database...	0.47	0.34	0.65	42	70811	26	3	20	3	83
ASE_00142	RNaseP_bact_a links to Rfam database...	0.79	0.70	0.89	86	67064	14	3	8	3	36
ASE_00146	RNaseP_bact_a links to Rfam database...	0.78	0.66	0.92	82	70787	10	2	5	3	42
ASE_00153	RNaseP_nuc links to Rfam database...	0.60	0.48	0.76	35	57584	26	0	11	15	38
ASE_00163	RNaseP_bact_a links to Rfam database...	0.79	0.70	0.89	65	53228	11	2	6	3	28
ASE_00165	RNaseP_bact_a links to Rfam database...	0.56	0.43	0.74	43	52917	19	1	14	4	58
ASE_00170	RNaseP_bact_a links to Rfam database...	0.71	0.62	0.82	58	48757	16	2	11	3	35
ASE_00171	RNaseP_bact_a links to Rfam database...	0.59	0.49	0.71	46	48451	22	1	18	3	48
ASE_00172	RNaseP_bact_a links to Rfam database...	0.59	0.46	0.75	49	58931	19	4	12	3	57
ASE_00174	RNaseP_bact_a links to Rfam database...	0.54	0.42	0.69	46	61008	24	3	18	3	63
ASE_00175	RNaseP_bact_a links to Rfam database...	0.71	0.55	0.91	59	59966	9	1	5	3	48
ASE_00179	RNaseP_bact_a links to Rfam database...	0.57	0.49	0.66	41	44191	24	4	17	3	43
ASE_00180	RNaseP_bact_a links to Rfam database...	0.72	0.61	0.85	61	51288	14	2	9	3	39
ASE_00181	RNaseP_bact_a links to Rfam database...	0.59	0.45	0.76	48	57567	19	3	12	4	58
ASE_00182	RNaseP_bact_a links to Rfam database...	0.35	0.24	0.51	33	84190	33	3	29	1	103
ASE_00183	RNaseP_bact_a links to Rfam database...	0.65	0.52	0.81	59	61352	17	0	14	3	54
ASE_00184	RNaseP_bact_a links to Rfam database...	0.69	0.55	0.86	56	54550	12	0	9	3	46
ASE_00185	RNaseP_bact_a links to Rfam database...	0.23	0.16	0.32	21	73470	46	8	37	1	107
ASE_00186	RNaseP_bact_a links to Rfam database...	0.72	0.62	0.84	82	78905	21	2	14	5	50
ASE_00190	RNaseP_bact_b links to Rfam database...	0.53	0.42	0.67	38	45394	23	5	14	4	52
ASE_00197	RNaseP_bact_a links to Rfam database...	0.67	0.55	0.82	80	89156	20	2	15	3	65
ASE_00198	RNaseP_bact_a links to Rfam database...	0.75	0.61	0.93	62	52583	8	1	4	3	40
ASE_00203	RNaseP_bact_a links to Rfam database...	0.56	0.47	0.68	45	46599	24	1	20	3	51
ASE_00212	RNaseP_bact_a links to Rfam database...	0.67	0.54	0.82	80	93864	20	2	15	3	68
ASE_00214	RNaseP_bact_a links to Rfam database...	0.74	0.63	0.87	65	56205	13	2	8	3	38
ASE_00215	RNaseP_bact_a links to Rfam database...	0.38	0.26	0.54	26	48468	23	2	20	1	73
ASE_00216	RNaseP_bact_a links to Rfam database...	0.69	0.59	0.81	48	39281	14	3	8	3	34
ASE_00217	RNaseP_bact_a links to Rfam database...	0.81	0.71	0.93	64	40401	8	2	3	3	26
ASE_00221	RNaseP_bact_a links to Rfam database...	0.78	0.69	0.89	81	64529	13	2	8	3	36
ASE_00228	RNaseP_bact_a links to Rfam database...	0.62	0.51	0.76	44	46913	18	2	12	4	42
ASE_00229	RNaseP_bact_a links to Rfam database...	0.72	0.62	0.84	54	42422	13	1	9	3	33
ASE_00231	RNaseP_bact_a links to Rfam database...	0.49	0.40	0.60	38	47832	27	5	20	2	58
ASE_00232	RNaseP_bact_a links to Rfam database...	0.63	0.57	0.71	48	38435	23	4	16	3	36
ASE_00234	RNaseP_bact_a links to Rfam database...	0.23	0.17	0.32	22	75398	48	3	43	2	107
ASE_00238	RNaseP_bact_a links to Rfam database...	0.54	0.39	0.76	44	64203	17	3	11	3	70
ASE_00241	RNaseP_bact_a links to Rfam database...	0.80	0.72	0.89	63	43885	11	2	6	3	24
ASE_00242	RNaseP_bact_a links to Rfam database...	0.82	0.75	0.90	84	60982	12	2	7	3	28
ASE_00248	RNaseP_bact_a links to Rfam database...	0.81	0.72	0.92	82	62392	11	2	5	4	32
ASE_00254	RNaseP_bact_a links to Rfam database...	0.67	0.59	0.77	48	36794	17	1	13	3	34
ASE_00255	RNaseP_bact_a links to Rfam database...	0.61	0.50	0.74	65	74603	26	5	18	3	65
ASE_00257	RNaseP_bact_a links to Rfam database...	0.72	0.58	0.90	56	50978	9	4	2	3	41
ASE_00263	RNaseP_bact_a links to Rfam database...	0.52	0.39	0.68	47	70431	25	3	19	3	73
ASE_00267	RNaseP_bact_a links to Rfam database...	0.75	0.65	0.86	57	45084	12	2	7	3	31
ASE_00270	RNaseP_bact_a links to Rfam database...	0.39	0.27	0.56	35	72328	32	0	27	5	93
ASE_00274	RNaseP_bact_a links to Rfam database...	0.60	0.48	0.77	49	55547	18	1	14	3	54
ASE_00277	RNaseP_bact_a links to Rfam database...	0.60	0.48	0.75	44	48146	19	1	14	4	47
ASE_00279	RNaseP_bact_a links to Rfam database...	0.78	0.65	0.93	66	53230	8	2	3	3	35
ASE_00280	RNaseP_bact_a links to Rfam database...	0.73	0.62	0.85	61	51931	14	1	10	3	37
ASE_00281	RNaseP_bact_a links to Rfam database...	0.79	0.68	0.91	60	44485	9	2	4	3	28
ASE_00282	RNaseP_bact_a links to Rfam database...	0.48	0.35	0.65	45	77746	26	3	21	2	82
ASE_00283	RNaseP_bact_a links to Rfam database...	0.68	0.56	0.82	60	61703	16	2	11	3	47
ASE_00284	RNaseP_bact_a links to Rfam database...	0.67	0.54	0.84	58	58242	14	2	9	3	50
ASE_00285	RNaseP_bact_a links to Rfam database...	0.51	0.40	0.64	49	68930	30	2	25	3	73
ASE_00286	RNaseP_bact_a links to Rfam database...	0.68	0.58	0.82	53	46600	15	1	11	3	39
ASE_00287	RNaseP_bact_a links to Rfam database...	0.67	0.54	0.84	56	54879	14	2	9	3	47
ASE_00292	RNaseP_bact_a links to Rfam database...	0.77	0.65	0.92	90	81712	11	3	5	3	48
ASE_00294	RNaseP_bact_a links to Rfam database...	0.67	0.51	0.87	88	114380	16	2	11	3	83
ASE_00296	RNaseP_bact_a links to Rfam database...	0.68	0.54	0.87	78	91716	15	3	9	3	67
ASE_00297	RNaseP_bact_a links to Rfam database...	0.62	0.50	0.77	49	52911	18	0	15	3	49
ASE_00298	RNaseP_bact_a links to Rfam database...	0.55	0.42	0.72	47	67463	21	4	14	3	66
ASE_00318	RNaseP_bact_b links to Rfam database...	0.63	0.54	0.74	64	80113	37	6	17	14	54
ASE_00328	RNaseP_bact_b links to Rfam database...	0.73	0.66	0.80	74	72679	31	5	13	13	38
ASE_00332	RNaseP_bact_a links to Rfam database...	0.74	0.63	0.88	87	81711	15	2	10	3	51
ASE_00335	RNaseP_bact_b links to Rfam database...	0.72	0.66	0.78	76	75369	33	6	15	12	40
ASE_00340	RNaseP_bact_a links to Rfam database...	0.51	0.45	0.59	38	45992	31	3	23	5	47
ASE_00342	RNaseP_bact_a links to Rfam database...	0.81	0.72	0.91	83	62390	11	3	5	3	32
ASE_00353	RNaseP_bact_a links to Rfam database...	0.69	0.56	0.86	60	57900	13	1	9	3	47
ASE_00361	RNaseP_bact_a links to Rfam database...	0.66	0.46	0.94	59	75403	7	1	3	3	68
ASE_00362	RNaseP_bact_a links to Rfam database...	0.76	0.66	0.88	60	48137	12	2	6	4	31
ASE_00363	RNaseP_bact_a links to Rfam database...	0.77	0.63	0.94	59	51297	7	1	3	3	35
ASE_00364	RNaseP_bact_a links to Rfam database...	0.70	0.57	0.87	60	54216	12	1	8	3	45
ASE_00366	RNaseP_bact_a links to Rfam database...	0.58	0.48	0.70	47	58586	23	6	14	3	51
ASE_00367	RNaseP_bact_a links to Rfam database...	0.79	0.71	0.88	61	43002	11	2	6	3	25
ASE_00369	RNaseP_bact_a links to Rfam database...	0.71	0.58	0.86	62	55873	13	1	9	3	45
ASE_00370	RNaseP_bact_a links to Rfam database...	0.81	0.71	0.92	60	41840	8	1	4	3	24
ASE_00372	RNaseP_bact_a links to Rfam database...	0.57	0.45	0.71	45	51940	21	2	16	3	55
ASE_00374	RNaseP_bact_a links to Rfam database...	0.79	0.68	0.91	60	44784	9	2	4	3	28
ASE_00376	RNaseP_bact_a links to Rfam database...	0.65	0.55	0.76	58	56877	21	2	16	3	47
ASE_00377	RNaseP_bact_a links to Rfam database...	0.72	0.58	0.89	62	57560	11	1	7	3	45
ASE_00379	RNaseP_bact_a links to Rfam database...	0.76	0.66	0.87	59	45988	12	2	7	3	30
ASE_00382	RNaseP_bact_a links to Rfam database...	0.79	0.71	0.88	60	41837	11	2	6	3	24
ASE_00383	RNaseP_bact_a links to Rfam database...	0.78	0.67	0.91	70	54538	10	2	5	3	35
ASE_00384	RNaseP_bact_a links to Rfam database...	0.72	0.61	0.85	56	48450	13	1	9	3	36
ASE_00386	RNaseP_bact_a links to Rfam database...	0.75	0.61	0.92	59	50339	8	1	4	3	37
ASE_00387	RNaseP_bact_a links to Rfam database...	0.60	0.50	0.71	52	55872	25	2	19	4	52
ASE_00388	RNaseP_bact_a links to Rfam database...	0.74	0.64	0.85	57	45686	14	2	8	4	32
ASE_00390	RNaseP_bact_a links to Rfam database...	0.78	0.68	0.89	58	42130	10	2	5	3	27
ASE_00393	RNaseP_bact_a links to Rfam database...	0.68	0.57	0.82	53	47830	15	1	11	3	40
ASE_00394	RNaseP_bact_a links to Rfam database...	0.73	0.62	0.87	58	46904	12	1	8	3	35
ASE_00395	RNaseP_bact_a links to Rfam database...	0.82	0.71	0.94	60	41552	7	1	3	3	24
ASE_00396	RNaseP_bact_a links to Rfam database...	0.75	0.66	0.85	55	41551	12	2	8	2	28
ASE_00397	RNaseP_bact_a links to Rfam database...	0.74	0.61	0.90	64	54544	10	2	5	3	41
ASE_00398	RNaseP_bact_a links to Rfam database...	0.65	0.52	0.82	54	55879	15	0	12	3	50
ASE_00400	RNaseP_bact_a links to Rfam database...	0.45	0.37	0.56	39	57900	33	2	29	2	67
ASE_00401	RNaseP_bact_a links to Rfam database...	0.55	0.40	0.76	51	76961	19	0	16	3	75
ASE_00402	RNaseP_bact_a links to Rfam database...	0.83	0.74	0.94	63	42419	7	1	3	3	22
ASE_00403	RNaseP_bact_a links to Rfam database...	0.71	0.57	0.90	61	55877	10	1	6	3	46
ASE_00404	RNaseP_bact_a links to Rfam database...	0.78	0.67	0.90	57	43008	10	2	4	4	28
ASE_00406	RNaseP_bact_a links to Rfam database...	0.79	0.68	0.93	64	48759	8	2	3	3	30
ASE_00411	RNaseP_bact_a links to Rfam database...	0.59	0.48	0.72	43	49395	20	2	15	3	46
ASE_00412	RNaseP_bact_a links to Rfam database...	0.55	0.42	0.72	44	58250	20	1	16	3	61
ASE_00413	RNaseP_bact_a links to Rfam database...	0.68	0.57	0.82	46	44495	14	1	9	4	35
ASE_00415	RNaseP_bact_a links to Rfam database...	0.39	0.31	0.48	32	54880	36	3	31	2	71
ASE_00416	RNaseP_bact_a links to Rfam database...	0.69	0.60	0.80	76	77326	23	3	16	4	51
ASE_00419	RNaseP_bact_a links to Rfam database...	0.59	0.49	0.72	50	54877	20	3	16	1	53
ASE_00422	RNaseP_bact_a links to Rfam database...	0.58	0.49	0.69	46	46904	24	3	18	3	48
ASE_00423	RNaseP_bact_a links to Rfam database...	0.81	0.72	0.90	79	56865	13	3	6	4	30
ASE_00428	RNaseP_bact_a links to Rfam database...	0.69	0.60	0.80	75	76542	22	5	14	3	50
ASE_00430	RNaseP_bact_a links to Rfam database...	0.55	0.45	0.68	44	46906	24	1	20	3	53
ASE_00437	RNaseP_bact_a links to Rfam database...	0.58	0.50	0.69	67	79304	33	2	28	3	68
ASE_00441	RNaseP_bact_a links to Rfam database...	0.32	0.24	0.43	27	64198	40	4	32	4	85
ASE_00448	RNaseP_bact_a links to Rfam database...	0.80	0.72	0.88	81	64169	14	2	9	3	31
ASE_00451	RNaseP_bact_a links to Rfam database...	0.77	0.66	0.88	83	70782	14	2	9	3	42
PDB_00828	Purine links to Rfam database...	0.82	0.67	1.00	18	2467	0	0	0	0	9
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...	0.83	0.70	1.00	16	2262	0	0	0	0	7
PDB_01073	SAM links to Rfam database...	0.81	0.74	0.89	25	4343	4	1	2	1	9
RFA_00599	Telomerase-vert links to Rfam database...	0.54	0.51	0.57	57	101375	62	5	38	19	54
RFA_00601	Telomerase-vert links to Rfam database...	0.74	0.73	0.75	83	99124	49	4	24	21	31
RFA_00602	Telomerase-vert links to Rfam database...	0.69	0.68	0.69	79	101361	50	5	30	15	37

^top

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

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

Total Base Pair Counts
Total TP	5838
Total TN	9836981
Total FP	1876
Total FP CONTRA	115
Total FP INCONS	1624
Total FP COMP	137
Total FN	11788

Total Scores
MCC	0.505
Average MCC ± 95% Confidence Intervals	0.511 ± 0.017
Sensitivity	0.331
Positive Predictive Value	0.770
Nr of predictions	168

^top

2. Individual counts for CMfinder(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...	0.50	0.29	0.88	28	47863	4	0	4	0	69
ASE_00005	RNaseP_bact_a links to Rfam database...	0.41	0.26	0.67	30	57925	15	0	15	0	87
ASE_00006	RNaseP_bact_a links to Rfam database...	0.54	0.40	0.74	37	47536	13	1	12	0	56
ASE_00007	RNaseP_bact_a links to Rfam database...	0.64	0.48	0.85	53	59623	11	1	8	2	57
ASE_00012	RNaseP_bact_a links to Rfam database...	0.41	0.18	0.96	22	73897	1	0	1	0	101
ASE_00018	RNaseP_bact_a links to Rfam database...	0.55	0.40	0.75	54	80529	20	1	17	2	80
ASE_00020	RNaseP_bact_a links to Rfam database...	0.40	0.24	0.68	30	73876	16	1	13	2	96
ASE_00021	RNaseP_bact_a links to Rfam database...	0.37	0.18	0.80	28	104161	7	1	6	0	132
ASE_00022	RNaseP_bact_b links to Rfam database...	0.45	0.28	0.71	35	82979	14	1	13	0	89
ASE_00028	RNaseP_bact_b links to Rfam database...	0.59	0.41	0.84	52	84604	11	3	7	1	74
ASE_00035	RNaseP_bact_a links to Rfam database...	0.46	0.29	0.74	34	70454	12	1	11	0	84
ASE_00037	RNaseP_bact_a links to Rfam database...	0.55	0.42	0.72	46	59276	18	0	18	0	64
ASE_00038	RNaseP_bact_a links to Rfam database...	0.51	0.37	0.73	37	53577	14	1	13	0	64
ASE_00040	RNaseP_bact_a links to Rfam database...	0.44	0.24	0.80	32	78963	9	1	7	1	101
ASE_00041	RNaseP_bact_a links to Rfam database...	0.54	0.38	0.77	41	57577	12	0	12	0	67
ASE_00042	RNaseP_bact_a links to Rfam database...	0.40	0.18	0.90	26	90071	3	0	3	0	119
ASE_00044	RNaseP_bact_a links to Rfam database...	0.45	0.29	0.71	30	54573	13	0	12	1	75
ASE_00064	RNaseP_bact_a links to Rfam database...	0.48	0.30	0.75	27	45415	10	1	8	1	62
ASE_00068	RNaseP_bact_a links to Rfam database...	0.61	0.44	0.86	37	37632	6	0	6	0	48
ASE_00074	RNaseP_bact_a links to Rfam database...	0.63	0.44	0.91	52	67839	6	0	5	1	67
ASE_00075	RNaseP_bact_a links to Rfam database...	0.37	0.17	0.80	28	108776	7	1	6	0	134
ASE_00077	RNaseP_bact_a links to Rfam database...	0.59	0.36	0.97	31	45118	1	0	1	0	55
ASE_00078	RNaseP_bact_a links to Rfam database...	0.72	0.61	0.84	51	43010	11	1	9	1	32
ASE_00080	RNaseP_bact_a links to Rfam database...	0.37	0.24	0.58	30	71579	22	0	22	0	93
ASE_00081	RNaseP_bact_a links to Rfam database...	0.51	0.31	0.86	30	49735	6	0	5	1	67
ASE_00082	RNaseP_bact_a links to Rfam database...	0.56	0.39	0.82	45	70445	17	0	10	7	71
ASE_00083	RNaseP_bact_a links to Rfam database...	0.50	0.27	0.91	30	62448	4	0	3	1	80
ASE_00084	RNaseP_bact_a links to Rfam database...	0.49	0.34	0.69	34	53579	15	0	15	0	65
ASE_00087	RNaseP_bact_a links to Rfam database...	0.41	0.21	0.79	30	88372	8	0	8	0	114
ASE_00090	RNaseP_bact_a links to Rfam database...	0.46	0.33	0.66	33	55561	18	0	17	1	68
ASE_00092	RNaseP_bact_a links to Rfam database...	0.55	0.37	0.81	42	63494	11	0	10	1	71
ASE_00099	RNaseP_bact_a links to Rfam database...	0.55	0.40	0.76	48	64557	17	0	15	2	72
ASE_00104	RNaseP_bact_a links to Rfam database...	0.47	0.30	0.73	36	64212	14	0	13	1	83
ASE_00105	RNaseP_bact_a links to Rfam database...	0.42	0.23	0.78	25	64229	7	1	6	0	86
ASE_00107	RNaseP_bact_a links to Rfam database...	0.62	0.45	0.85	57	73086	10	0	10	0	70
ASE_00115	RNaseP_bact_a links to Rfam database...	0.51	0.29	0.91	29	54583	4	0	3	1	72
ASE_00118	RNaseP_bact_a links to Rfam database...	0.65	0.48	0.88	49	60670	9	1	6	2	53
ASE_00119	RNaseP_bact_a links to Rfam database...	0.44	0.29	0.67	31	62789	17	3	12	2	77
ASE_00123	RNaseP_bact_a links to Rfam database...	0.45	0.28	0.71	24	38469	14	0	10	4	61
ASE_00125	RNaseP_bact_a links to Rfam database...	0.55	0.40	0.76	35	39294	12	1	10	1	53
ASE_00128	RNaseP_bact_a links to Rfam database...	0.51	0.29	0.91	29	53269	4	0	3	1	71
ASE_00129	RNaseP_bact_a links to Rfam database...	0.51	0.27	0.97	30	62804	1	0	1	0	81
ASE_00131	RNaseP_bact_a links to Rfam database...	0.53	0.34	0.83	29	39305	7	0	6	1	56
ASE_00134	RNaseP_bact_a links to Rfam database...	0.63	0.48	0.82	46	50347	11	0	10	1	49
ASE_00135	RNaseP_bact_a links to Rfam database...	0.47	0.34	0.65	37	63133	20	1	19	0	72
ASE_00136	RNaseP_bact_a links to Rfam database...	0.63	0.50	0.81	46	48148	13	0	11	2	46
ASE_00137	RNaseP_bact_a links to Rfam database...	0.67	0.50	0.89	49	48461	7	2	4	1	49
ASE_00138	RNaseP_bact_a links to Rfam database...	0.74	0.63	0.86	51	40411	9	1	7	1	30
ASE_00140	RNaseP_bact_a links to Rfam database...	0.35	0.18	0.69	22	70844	11	0	10	1	103
ASE_00142	RNaseP_bact_a links to Rfam database...	0.46	0.22	0.96	27	67133	3	0	1	2	95
ASE_00146	RNaseP_bact_a links to Rfam database...	0.52	0.38	0.70	47	70809	20	1	19	0	77
ASE_00153	RNaseP_nuc links to Rfam database...	0.09	0.05	0.16	4	57605	39	5	16	18	69
ASE_00163	RNaseP_bact_a links to Rfam database...	0.67	0.54	0.83	50	53241	10	1	9	0	43
ASE_00165	RNaseP_bact_a links to Rfam database...	0.54	0.31	0.97	31	52943	1	0	1	0	70
ASE_00170	RNaseP_bact_a links to Rfam database...	0.52	0.32	0.83	30	48792	8	0	6	2	63
ASE_00171	RNaseP_bact_a links to Rfam database...	0.64	0.48	0.85	45	48463	9	1	7	1	49
ASE_00172	RNaseP_bact_a links to Rfam database...	0.53	0.38	0.74	40	58942	15	1	13	1	66
ASE_00174	RNaseP_bact_a links to Rfam database...	0.39	0.19	0.81	21	61049	5	2	3	0	88
ASE_00175	RNaseP_bact_a links to Rfam database...	0.46	0.32	0.65	34	59979	18	0	18	0	73
ASE_00179	RNaseP_bact_a links to Rfam database...	0.55	0.45	0.67	38	44196	19	3	16	0	46
ASE_00180	RNaseP_bact_a links to Rfam database...	0.69	0.57	0.84	57	51292	11	0	11	0	43
ASE_00181	RNaseP_bact_a links to Rfam database...	0.50	0.30	0.82	32	57591	8	0	7	1	74
ASE_00182	RNaseP_bact_a links to Rfam database...	0.40	0.26	0.64	35	84200	20	1	19	0	101
ASE_00183	RNaseP_bact_a links to Rfam database...	0.42	0.26	0.67	29	61382	14	0	14	0	84
ASE_00184	RNaseP_bact_a links to Rfam database...	0.63	0.47	0.86	48	54559	8	1	7	0	54
ASE_00185	RNaseP_bact_a links to Rfam database...	0.35	0.18	0.70	23	73503	10	0	10	0	105
ASE_00186	RNaseP_bact_a links to Rfam database...	0.44	0.27	0.71	36	78952	15	0	15	0	96
ASE_00190	RNaseP_bact_b links to Rfam database...	0.32	0.18	0.57	16	45423	13	1	11	1	74
ASE_00197	RNaseP_bact_a links to Rfam database...	0.45	0.26	0.78	38	89204	11	0	11	0	107
ASE_00198	RNaseP_bact_a links to Rfam database...	0.62	0.46	0.84	47	52594	9	1	8	0	55
ASE_00203	RNaseP_bact_a links to Rfam database...	0.44	0.24	0.79	23	46636	6	2	4	0	73
ASE_00212	RNaseP_bact_a links to Rfam database...	0.43	0.27	0.69	40	93903	18	1	17	0	108
ASE_00214	RNaseP_bact_a links to Rfam database...	0.62	0.47	0.81	48	56221	13	0	11	2	55
ASE_00215	RNaseP_bact_a links to Rfam database...	0.42	0.27	0.66	27	48475	15	0	14	1	72
ASE_00216	RNaseP_bact_a links to Rfam database...	0.72	0.60	0.86	49	39283	8	5	3	0	33
ASE_00217	RNaseP_bact_a links to Rfam database...	0.54	0.38	0.77	34	40426	12	0	10	2	56
ASE_00221	RNaseP_bact_a links to Rfam database...	0.56	0.38	0.80	45	64564	11	1	10	0	72
ASE_00228	RNaseP_bact_a links to Rfam database...	0.41	0.24	0.70	21	46941	10	2	7	1	65
ASE_00229	RNaseP_bact_a links to Rfam database...	0.57	0.44	0.75	38	42435	14	0	13	1	49
ASE_00231	RNaseP_bact_a links to Rfam database...	0.61	0.45	0.83	43	47843	9	2	7	0	53
ASE_00232	RNaseP_bact_a links to Rfam database...	0.66	0.56	0.78	47	38443	13	4	9	0	37
ASE_00234	RNaseP_bact_a links to Rfam database...	0.45	0.27	0.74	35	75419	12	1	11	0	94
ASE_00238	RNaseP_bact_a links to Rfam database...	0.46	0.22	0.96	25	64235	1	0	1	0	89
ASE_00241	RNaseP_bact_a links to Rfam database...	0.77	0.68	0.88	59	43889	8	0	8	0	28
ASE_00242	RNaseP_bact_a links to Rfam database...	0.58	0.41	0.81	46	61018	13	1	10	2	66
ASE_00248	RNaseP_bact_a links to Rfam database...	0.56	0.39	0.80	44	62426	11	1	10	0	70
ASE_00254	RNaseP_bact_a links to Rfam database...	0.65	0.55	0.76	45	36797	14	3	11	0	37
ASE_00255	RNaseP_bact_a links to Rfam database...	0.42	0.22	0.82	28	74657	6	1	5	0	102
ASE_00257	RNaseP_bact_a links to Rfam database...	0.51	0.36	0.73	35	50992	14	0	13	1	62
ASE_00263	RNaseP_bact_a links to Rfam database...	0.50	0.33	0.78	39	70450	12	0	11	1	81
ASE_00267	RNaseP_bact_a links to Rfam database...	0.62	0.47	0.82	41	45100	10	0	9	1	47
ASE_00270	RNaseP_bact_a links to Rfam database...	0.47	0.27	0.80	35	72346	9	0	9	0	93
ASE_00274	RNaseP_bact_a links to Rfam database...	0.56	0.42	0.75	43	55554	14	1	13	0	60
ASE_00277	RNaseP_bact_a links to Rfam database...	0.49	0.27	0.89	25	48177	3	0	3	0	66
ASE_00279	RNaseP_bact_a links to Rfam database...	0.50	0.27	0.93	27	53272	2	0	2	0	74
ASE_00280	RNaseP_bact_a links to Rfam database...	0.45	0.30	0.67	29	51960	15	0	14	1	69
ASE_00281	RNaseP_bact_a links to Rfam database...	0.49	0.30	0.81	26	44519	6	0	6	0	62
ASE_00282	RNaseP_bact_a links to Rfam database...	0.45	0.30	0.68	38	77759	18	1	17	0	89
ASE_00283	RNaseP_bact_a links to Rfam database...	0.46	0.26	0.82	28	61742	8	0	6	2	79
ASE_00284	RNaseP_bact_a links to Rfam database...	0.41	0.24	0.70	26	58274	11	0	11	0	82
ASE_00285	RNaseP_bact_a links to Rfam database...	0.43	0.22	0.82	27	68973	6	0	6	0	95
ASE_00286	RNaseP_bact_a links to Rfam database...	0.66	0.51	0.85	47	46610	9	0	8	1	45
ASE_00287	RNaseP_bact_a links to Rfam database...	0.44	0.31	0.63	32	54895	20	1	18	1	71
ASE_00292	RNaseP_bact_a links to Rfam database...	0.50	0.35	0.72	48	81743	19	0	19	0	90
ASE_00294	RNaseP_bact_a links to Rfam database...	0.37	0.19	0.74	32	114438	12	0	11	1	139
ASE_00296	RNaseP_bact_a links to Rfam database...	0.35	0.18	0.67	26	91767	13	0	13	0	119
ASE_00297	RNaseP_bact_a links to Rfam database...	0.40	0.24	0.65	24	52938	14	0	13	1	74
ASE_00298	RNaseP_bact_a links to Rfam database...	0.54	0.38	0.75	43	67471	14	1	13	0	70
ASE_00318	RNaseP_bact_b links to Rfam database...	0.49	0.31	0.80	36	80155	10	3	6	1	82
ASE_00328	RNaseP_bact_b links to Rfam database...	0.48	0.34	0.69	38	72716	20	4	13	3	74
ASE_00332	RNaseP_bact_a links to Rfam database...	0.41	0.20	0.87	27	81779	4	0	4	0	111
ASE_00335	RNaseP_bact_b links to Rfam database...	0.46	0.32	0.67	37	75411	19	2	16	1	79
ASE_00340	RNaseP_bact_a links to Rfam database...	0.47	0.36	0.62	31	46006	19	5	14	0	54
ASE_00342	RNaseP_bact_a links to Rfam database...	0.57	0.41	0.81	47	62423	13	0	11	2	68
ASE_00353	RNaseP_bact_a links to Rfam database...	0.52	0.39	0.68	42	57908	21	1	19	1	65
ASE_00361	RNaseP_bact_a links to Rfam database...	0.40	0.21	0.75	27	75430	10	1	8	1	100
ASE_00362	RNaseP_bact_a links to Rfam database...	0.52	0.41	0.66	37	48149	19	0	19	0	54
ASE_00363	RNaseP_bact_a links to Rfam database...	0.48	0.30	0.78	28	51324	9	4	4	1	66
ASE_00364	RNaseP_bact_a links to Rfam database...	0.43	0.25	0.76	26	54251	8	0	8	0	79
ASE_00366	RNaseP_bact_a links to Rfam database...	0.43	0.33	0.56	32	58596	25	3	22	0	66
ASE_00367	RNaseP_bact_a links to Rfam database...	0.50	0.30	0.84	26	43040	5	0	5	0	60
ASE_00369	RNaseP_bact_a links to Rfam database...	0.55	0.38	0.79	41	55893	11	0	11	0	66
ASE_00370	RNaseP_bact_a links to Rfam database...	0.69	0.57	0.83	48	41847	11	1	9	1	36
ASE_00372	RNaseP_bact_a links to Rfam database...	0.60	0.43	0.84	43	51952	8	0	8	0	57
ASE_00374	RNaseP_bact_a links to Rfam database...	0.52	0.32	0.85	28	44817	6	0	5	1	60
ASE_00376	RNaseP_bact_a links to Rfam database...	0.42	0.25	0.70	26	56916	11	0	11	0	79
ASE_00377	RNaseP_bact_a links to Rfam database...	0.43	0.25	0.75	27	57594	10	0	9	1	80
ASE_00379	RNaseP_bact_a links to Rfam database...	0.60	0.44	0.83	39	46009	9	0	8	1	50
ASE_00382	RNaseP_bact_a links to Rfam database...	0.64	0.51	0.81	43	41852	11	1	9	1	41
ASE_00383	RNaseP_bact_a links to Rfam database...	0.55	0.38	0.78	40	54564	11	1	10	0	65
ASE_00384	RNaseP_bact_a links to Rfam database...	0.49	0.28	0.87	26	48486	5	0	4	1	66
ASE_00386	RNaseP_bact_a links to Rfam database...	0.54	0.31	0.94	30	50371	3	0	2	1	66
ASE_00387	RNaseP_bact_a links to Rfam database...	0.42	0.23	0.75	24	55913	9	0	8	1	80
ASE_00388	RNaseP_bact_a links to Rfam database...	0.68	0.55	0.84	49	45695	10	1	8	1	40
ASE_00390	RNaseP_bact_a links to Rfam database...	0.55	0.33	0.93	28	42165	3	0	2	1	57
ASE_00393	RNaseP_bact_a links to Rfam database...	0.58	0.45	0.74	42	47838	15	1	14	0	51
ASE_00394	RNaseP_bact_a links to Rfam database...	0.54	0.31	0.94	29	46940	3	0	2	1	64
ASE_00395	RNaseP_bact_a links to Rfam database...	0.61	0.48	0.78	40	41565	11	0	11	0	44
ASE_00396	RNaseP_bact_a links to Rfam database...	0.56	0.34	0.93	28	41586	3	0	2	1	55
ASE_00397	RNaseP_bact_a links to Rfam database...	0.55	0.38	0.78	40	54564	12	0	11	1	65
ASE_00398	RNaseP_bact_a links to Rfam database...	0.44	0.23	0.86	24	55917	5	0	4	1	80
ASE_00400	RNaseP_bact_a links to Rfam database...	0.58	0.43	0.78	46	57911	13	1	12	0	60
ASE_00401	RNaseP_bact_a links to Rfam database...	0.43	0.21	0.90	26	76999	4	0	3	1	100
ASE_00402	RNaseP_bact_a links to Rfam database...	0.54	0.36	0.79	31	42447	8	0	8	0	54
ASE_00403	RNaseP_bact_a links to Rfam database...	0.61	0.42	0.88	45	55894	6	1	5	0	62
ASE_00404	RNaseP_bact_a links to Rfam database...	0.68	0.56	0.83	48	43013	10	1	9	0	37
ASE_00406	RNaseP_bact_a links to Rfam database...	0.59	0.41	0.85	39	48782	9	0	7	2	55
ASE_00411	RNaseP_bact_a links to Rfam database...	0.44	0.33	0.59	29	49406	20	1	19	0	60
ASE_00412	RNaseP_bact_a links to Rfam database...	0.53	0.36	0.79	38	58263	11	0	10	1	67
ASE_00413	RNaseP_bact_a links to Rfam database...	0.51	0.37	0.70	30	44508	14	3	10	1	51
ASE_00415	RNaseP_bact_a links to Rfam database...	0.39	0.20	0.75	21	54918	8	0	7	1	82
ASE_00416	RNaseP_bact_a links to Rfam database...	0.42	0.21	0.82	27	77388	7	0	6	1	100
ASE_00419	RNaseP_bact_a links to Rfam database...	0.55	0.41	0.75	42	54890	14	2	12	0	61
ASE_00422	RNaseP_bact_a links to Rfam database...	0.57	0.40	0.79	38	46923	11	0	10	1	56
ASE_00423	RNaseP_bact_a links to Rfam database...	0.39	0.24	0.63	26	56912	15	0	15	0	83
ASE_00428	RNaseP_bact_a links to Rfam database...	0.56	0.40	0.79	50	76573	13	1	12	0	75
ASE_00430	RNaseP_bact_a links to Rfam database...	0.46	0.25	0.86	24	46943	4	0	4	0	73
ASE_00437	RNaseP_bact_a links to Rfam database...	0.58	0.39	0.87	53	79340	8	0	8	0	82
ASE_00441	RNaseP_bact_a links to Rfam database...	0.53	0.36	0.80	40	64211	11	1	9	1	72
ASE_00448	RNaseP_bact_a links to Rfam database...	0.51	0.33	0.79	37	64214	11	0	10	1	75
ASE_00451	RNaseP_bact_a links to Rfam database...	0.54	0.35	0.83	44	70823	10	1	8	1	81
PDB_00828	Purine links to Rfam database...	0.84	0.70	1.00	19	2466	0	0	0	0	8
PDB_00829	Purine links to Rfam database...	0.84	0.71	1.00	17	2261	0	0	0	0	7
PDB_01020	Purine links to Rfam database...	0.78	0.61	1.00	14	2264	0	0	0	0	9
PDB_01073	SAM links to Rfam database...	0.59	0.35	1.00	12	4359	1	0	0	1	22
RFA_00599	Telomerase-vert links to Rfam database...	0.06	0.04	0.10	4	101435	37	2	34	1	107
RFA_00601	Telomerase-vert links to Rfam database...	0.20	0.13	0.32	15	99188	37	2	30	5	99
RFA_00602	Telomerase-vert links to Rfam database...	0.15	0.09	0.26	10	101437	34	0	28	6	106

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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 MXScarna(seed) - scored higher in this pairwise comparison

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

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

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

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

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