CompaRNA - on-line benchmarks of RNA structure prediction methods

Laboratory of Structural Bioinformatics @ Adam Mickiewicz University in Poznan

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Overview

Metric	ContextFold		CentroidFold
MCC	0.687	>	0.445
Average MCC ± 95% Confidence Intervals	0.684 ± 0.029	>	0.453 ± 0.020
Sensitivity	0.644	>	0.376
Positive Predictive Value	0.732	>	0.526
Total TP	46833	>	27377
Total TN	203245463	<	203257327
Total FP	25494	<	33369
Total FP CONTRA	3007	<	3870
Total FP INCONS	14118	<	20847
Total FP COMP	8369	<	8652
Total FN	25904	<	45360
P-value	3.56938820447e-08

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Performance plots

Comparison of performance of ContextFold and CentroidFold. 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 ContextFold and CentroidFold).
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 ContextFold and CentroidFold).
Comparison of average Matthews Correlation Coefficients (MCCs) for ContextFold and CentroidFold. 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 ContextFold and CentroidFold).

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Performance of ContextFold - scored higher in this pairwise comparison

1. Total counts & total scores for ContextFold

Total Base Pair Counts
Total TP	46833
Total TN	203245463
Total FP	25494
Total FP CONTRA	3007
Total FP INCONS	14118
Total FP COMP	8369
Total FN	25904

Total Scores
MCC	0.687
Average MCC ± 95% Confidence Intervals	0.684 ± 0.029
Sensitivity	0.644
Positive Predictive Value	0.732
Nr of predictions	199

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

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
CRW_00002	-	0.59	0.52	0.69	136	408862	102	9	53	40	128
CRW_00024	SSU_rRNA_archaea links to Rfam database...	0.95	0.92	0.98	423	1085170	15	3	5	7	35
CRW_00034	SSU_rRNA_bacteria links to Rfam database...	0.91	0.89	0.93	421	1141864	43	16	15	12	53
CRW_00048	SSU_rRNA_bacteria links to Rfam database...	0.94	0.90	0.98	421	1170787	8	3	4	1	49
CRW_00054	SSU_rRNA_bacteria links to Rfam database...	0.94	0.90	0.97	412	1107393	12	2	9	1	44
CRW_00059	SSU_rRNA_bacteria links to Rfam database...	0.91	0.88	0.95	416	1172309	22	2	19	1	57
CRW_00061	SSU_rRNA_bacteria links to Rfam database...	0.94	0.90	0.97	429	1181511	14	7	6	1	47
CRW_00068	SSU_rRNA_bacteria links to Rfam database...	0.95	0.92	0.99	421	1108878	11	2	4	5	36
CRW_00096	SSU_rRNA_bacteria links to Rfam database...	0.96	0.92	0.99	430	1178445	8	0	5	3	35
CRW_00140	SSU_rRNA_bacteria links to Rfam database...	0.93	0.90	0.97	415	1135850	16	2	11	3	48
CRW_00141	SSU_rRNA_bacteria links to Rfam database...	0.93	0.89	0.97	426	1201584	22	4	11	7	50
CRW_00150	SSU_rRNA_bacteria links to Rfam database...	0.85	0.81	0.90	376	1152502	48	6	37	5	90
CRW_00152	SSU_rRNA_bacteria links to Rfam database...	0.91	0.87	0.95	412	1179984	23	8	12	3	59
CRW_00166	SSU_rRNA_bacteria links to Rfam database...	0.95	0.91	0.99	427	1190763	11	0	6	5	41
CRW_00173	SSU_rRNA_bacteria links to Rfam database...	0.78	0.71	0.85	318	1082280	60	6	52	2	127
CRW_00177	SSU_rRNA_bacteria links to Rfam database...	0.92	0.88	0.97	417	1178448	25	2	13	10	56
CRW_00196	SSU_rRNA_bacteria links to Rfam database...	0.94	0.89	1.00	424	1207810	4	1	0	3	51
CRW_00230	SSU_rRNA_bacteria links to Rfam database...	0.94	0.90	0.97	431	1198483	18	4	8	6	47
CRW_00245	SSU_rRNA_bacteria links to Rfam database...	0.93	0.89	0.97	404	1105911	13	2	11	0	49
CRW_00248	SSU_rRNA_bacteria links to Rfam database...	0.92	0.89	0.96	433	1218688	25	3	17	5	51
CRW_00250	SSU_rRNA_bacteria links to Rfam database...	0.94	0.91	0.98	435	1198481	12	4	6	2	43
CRW_00256	SSU_rRNA_bacteria links to Rfam database...	0.86	0.80	0.91	376	1192327	51	4	33	14	92
CRW_00270	SSU_rRNA_bacteria links to Rfam database...	0.91	0.86	0.95	391	1111876	31	0	19	12	64
CRW_00271	SSU_rRNA_bacteria links to Rfam database...	0.92	0.88	0.98	405	1122336	12	2	8	2	57
CRW_00273	SSU_rRNA_bacteria links to Rfam database...	0.91	0.86	0.97	383	1085207	14	1	10	3	63
CRW_00275	SSU_rRNA_bacteria links to Rfam database...	0.94	0.90	0.98	412	1114849	15	3	7	5	45
CRW_00277	SSU_rRNA_bacteria links to Rfam database...	0.83	0.79	0.87	359	1110384	57	9	43	5	94
CRW_00278	SSU_rRNA_bacteria links to Rfam database...	0.77	0.70	0.84	316	1129880	68	9	51	8	134
CRW_00279	SSU_rRNA_bacteria links to Rfam database...	0.89	0.84	0.94	389	1180004	36	4	19	13	75
CRW_00280	SSU_rRNA_bacteria links to Rfam database...	0.92	0.88	0.95	398	1117843	21	4	15	2	55
CRW_00281	SSU_rRNA_bacteria links to Rfam database...	0.92	0.87	0.96	405	1144919	21	2	15	4	59
CRW_00283	SSU_rRNA_bacteria links to Rfam database...	0.75	0.69	0.81	298	1015659	88	12	56	20	134
CRW_00284	SSU_rRNA_bacteria links to Rfam database...	0.85	0.80	0.89	365	1131352	48	0	43	5	91
CRW_00285	SSU_rRNA_bacteria links to Rfam database...	0.95	0.91	0.99	416	1117839	7	2	3	2	42
CRW_00289	SSU_rRNA_bacteria links to Rfam database...	0.85	0.80	0.90	382	1189229	44	4	38	2	94
CRW_00292	SSU_rRNA_bacteria links to Rfam database...	0.76	0.70	0.81	325	1123851	81	12	62	7	136
CRW_00298	SSU_rRNA_eukarya links to Rfam database...	0.38	0.35	0.41	173	1620475	275	37	215	23	321
CRW_00301	SSU_rRNA_eukarya links to Rfam database...	0.51	0.47	0.55	245	1762058	245	26	174	45	274
CRW_00306	SSU_rRNA_eukarya links to Rfam database...	0.37	0.36	0.37	168	1445399	304	63	220	21	294
CRW_00310	SSU_rRNA_eukarya links to Rfam database...	0.49	0.47	0.52	243	1805487	271	31	189	51	278
CRW_00326	SSU_rRNA_eukarya links to Rfam database...	0.58	0.54	0.63	271	1627677	194	30	132	32	231
CRW_00330	SSU_rRNA_eukarya links to Rfam database...	0.47	0.45	0.49	232	1988538	308	45	200	63	285
CRW_00332	SSU_rRNA_eukarya links to Rfam database...	0.50	0.46	0.54	218	1769618	245	34	151	60	259
CRW_00333	SSU_rRNA_eukarya links to Rfam database...	0.36	0.33	0.40	171	1892055	315	40	219	56	343
CRW_00338	-	0.25	0.26	0.25	102	1053015	324	55	254	15	293
CRW_00345	SSU_rRNA_eukarya links to Rfam database...	0.39	0.38	0.41	187	1586412	289	48	224	17	311
CRW_00346	SSU_rRNA_eukarya links to Rfam database...	0.36	0.34	0.38	172	1584635	308	55	228	25	329
CRW_00348	SSU_rRNA_eukarya links to Rfam database...	0.46	0.44	0.49	219	1615055	262	39	190	33	284
CRW_00358	SSU_rRNA_eukarya links to Rfam database...	0.46	0.45	0.47	227	1674887	268	53	198	17	280
CRW_00366	SSU_rRNA_eukarya links to Rfam database...	0.45	0.42	0.48	202	1579334	251	36	181	34	280
CRW_00370	SSU_rRNA_eukarya links to Rfam database...	0.37	0.35	0.39	176	1640316	302	35	239	28	330
CRW_00371	SSU_rRNA_eukarya links to Rfam database...	0.56	0.53	0.58	263	1611460	230	33	154	43	233
CRW_00372	SSU_rRNA_eukarya links to Rfam database...	0.47	0.45	0.49	225	1625846	264	44	191	29	273
CRW_00381	-	0.56	0.54	0.59	299	2303227	281	32	173	76	258
CRW_00386	SSU_rRNA_eukarya links to Rfam database...	0.39	0.38	0.39	197	1750754	338	55	250	33	318
CRW_00403	SSU_rRNA_eukarya links to Rfam database...	0.51	0.48	0.55	222	1606122	262	30	154	78	242
CRW_00411	SSU_rRNA_eukarya links to Rfam database...	0.55	0.52	0.59	257	1615067	222	34	145	43	239
CRW_00414	SSU_rRNA_eukarya links to Rfam database...	0.43	0.41	0.44	205	1665761	293	45	214	34	290
CRW_00417	-	0.87	0.80	0.95	209	458183	19	2	9	8	53
CRW_00418	-	0.66	0.58	0.75	152	441127	54	6	45	3	108
CRW_00419	-	0.78	0.70	0.88	186	463954	32	6	20	6	79
CRW_00421	-	0.77	0.71	0.84	188	462978	47	6	31	10	78
CRW_00422	-	0.90	0.81	0.99	214	455318	14	0	3	11	49
CRW_00424	-	0.69	0.63	0.77	228	789098	94	11	59	24	135
CRW_00426	-	0.88	0.81	0.97	214	457225	18	0	7	11	51
CRW_00427	-	0.80	0.74	0.88	192	454363	31	5	21	5	69
CRW_00428	-	0.80	0.71	0.89	185	465888	28	2	20	6	75
CRW_00430	-	0.76	0.71	0.83	188	456263	46	7	32	7	78
CRW_00433	-	0.83	0.73	0.94	192	467823	17	2	11	4	71
CRW_00434	-	0.87	0.77	0.97	203	457237	12	3	3	6	60
CRW_00435	-	0.60	0.51	0.69	136	451528	71	6	55	10	129
CRW_00437	-	0.85	0.77	0.94	199	456279	19	1	11	7	61
CRW_00438	-	0.75	0.66	0.84	178	454369	43	5	29	9	90
CRW_00441	-	0.84	0.76	0.93	198	454368	21	1	14	6	64
CRW_00442	-	0.76	0.68	0.84	178	453416	46	4	30	12	83
CRW_00443	-	0.61	0.53	0.70	138	456292	71	7	53	11	122
CRW_00444	-	0.89	0.81	0.98	214	459143	13	2	2	9	49
CRW_00445	-	0.86	0.76	0.97	202	458195	11	1	5	5	63
CRW_00446	-	0.86	0.79	0.93	209	468771	29	3	13	13	56
CRW_00447	-	0.61	0.58	0.66	150	452447	84	15	64	5	110
CRW_00448	-	0.86	0.76	0.97	198	457241	20	1	6	13	63
CRW_00449	-	0.83	0.76	0.91	197	444879	26	7	13	6	63
CRW_00450	-	0.76	0.68	0.84	178	458191	47	6	28	13	84
CRW_00451	-	0.84	0.76	0.92	201	457228	26	4	13	9	63
CRW_00452	-	0.88	0.79	0.98	208	453415	14	3	2	9	54
CRW_00453	-	0.75	0.66	0.86	172	452477	34	3	24	7	89
CRW_00454	-	0.37	0.35	0.40	151	1730350	328	43	186	99	284
CRW_00456	-	0.82	0.74	0.91	195	470720	26	2	18	6	70
CRW_00457	-	0.86	0.78	0.95	207	467811	23	3	7	13	57
CRW_00458	-	0.91	0.84	0.98	223	464902	16	2	3	11	41
CRW_00459	-	0.87	0.79	0.96	207	462025	19	0	9	10	56
CRW_00460	-	0.38	0.35	0.42	190	1972638	326	30	233	63	354
CRW_00462	-	0.79	0.70	0.88	183	458196	30	6	18	6	78
CRW_00463	-	0.75	0.69	0.82	176	445825	42	11	28	3	78
CRW_00464	-	0.88	0.80	0.97	212	462022	14	2	5	7	52
CRW_00466	SSU_rRNA_bacteria links to Rfam database...	0.95	0.92	0.98	421	1116336	10	3	5	2	37
CRW_00522	-	0.31	0.28	0.33	221	3642980	461	77	372	12	561
CRW_00530	-	0.29	0.28	0.30	74	534851	176	43	127	6	194
CRW_00535	-	0.45	0.44	0.47	144	898162	183	38	126	19	184
CRW_00538	-	0.31	0.29	0.34	88	811913	189	31	143	15	212
CRW_00542	-	0.20	0.21	0.20	67	994418	300	70	200	30	250
CRW_00589	SSU_rRNA_bacteria links to Rfam database...	0.84	0.79	0.90	350	1094071	49	3	36	10	95
CRW_00590	SSU_rRNA_bacteria links to Rfam database...	0.85	0.79	0.91	358	1119364	45	3	31	11	94
CRW_00591	SSU_rRNA_bacteria links to Rfam database...	0.92	0.88	0.96	393	1098492	32	6	12	14	53
CRW_00594	-	0.21	0.21	0.21	83	1028491	337	39	282	16	312
CRW_00596	-	0.53	0.51	0.55	198	1024237	183	25	136	22	188
CRW_00597	-	0.36	0.35	0.38	143	1200100	258	38	194	26	268
CRW_00598	SSU_rRNA_eukarya links to Rfam database...	0.31	0.29	0.34	144	1665799	323	40	242	41	347
CRW_00604	-	0.76	0.77	0.76	62	411696	170	7	13	150	19
CRW_00606	-	0.55	0.57	0.54	52	559057	214	15	29	170	40
CRW_00607	-	0.82	0.77	0.88	59	536063	209	0	8	201	18
CRW_00615	-	0.73	0.71	0.75	58	553801	230	14	5	211	24
CRW_00616	-	0.57	0.54	0.60	59	1699148	383	11	28	344	51
CRW_00617	-	0.35	0.38	0.32	24	426351	179	22	29	128	40
CRW_00678	-	0.48	0.51	0.45	62	666296	245	14	63	168	59
CRW_00680	-	0.88	0.84	0.92	102	516525	157	3	6	148	20
CRW_00683	-	0.61	0.64	0.58	86	460172	167	26	36	105	49
CRW_00684	-	0.60	0.64	0.56	86	612017	209	26	42	141	49
CRW_00702	-	0.74	0.79	0.69	59	357350	156	19	7	130	16
CRW_00704	-	0.58	0.54	0.61	51	386677	165	11	21	133	43
CRW_00705	-	0.29	0.33	0.27	28	1461090	408	29	48	331	58
CRW_00706	-	0.54	0.63	0.47	37	695531	262	23	19	220	22
CRW_00709	-	0.17	0.18	0.17	15	1728783	445	12	60	373	70
CRW_00710	-	0.65	0.63	0.68	72	1040297	294	10	24	260	42
CRW_00712	-	0.59	0.58	0.61	63	952786	270	6	35	229	45
CRW_00713	-	0.64	0.59	0.70	60	731359	250	4	22	224	41
CRW_00723	-	0.35	0.38	0.32	28	1583223	420	22	37	361	46
CRW_00758	SSU_rRNA_eukarya links to Rfam database...	0.46	0.45	0.48	217	1640313	290	20	216	54	266
CRW_00759	SSU_rRNA_eukarya links to Rfam database...	0.40	0.38	0.42	181	1636714	284	45	205	34	300
CRW_00760	SSU_rRNA_eukarya links to Rfam database...	0.41	0.39	0.43	189	1638513	310	51	202	57	297
CRW_00763	SSU_rRNA_bacteria links to Rfam database...	0.75	0.69	0.82	306	1215649	111	12	53	46	140
CRW_00765	-	0.86	0.79	0.93	203	452457	30	4	12	14	54
CRW_00766	-	0.41	0.38	0.45	92	440185	127	14	100	13	148
CRW_00768	-	0.83	0.76	0.92	196	471692	35	1	17	17	63
CRW_00769	-	0.69	0.62	0.78	155	451525	53	9	36	8	97
CRW_00772	SSU_rRNA_bacteria links to Rfam database...	0.71	0.65	0.79	262	945667	95	9	62	24	142
CRW_00773	-	0.80	0.74	0.87	192	451505	40	1	27	12	67
CRW_00774	-	0.85	0.78	0.94	205	488347	28	1	13	14	58
CRW_00777	-	0.46	0.44	0.48	135	719120	172	28	117	27	169
CRW_00778	SSU_rRNA_bacteria links to Rfam database...	0.71	0.64	0.79	246	1201714	124	13	52	59	138
CRW_00779	-	0.48	0.44	0.53	184	1031419	181	18	145	18	238
CRW_00780	-	0.81	0.73	0.90	185	475594	40	5	16	19	70
CRW_00781	-	0.66	0.62	0.70	278	1978660	242	16	101	125	172
CRW_00783	-	0.82	0.73	0.93	188	453425	24	2	13	9	71
CRW_00784	-	0.88	0.80	0.96	210	456272	24	2	6	16	52
CRW_00785	-	0.80	0.72	0.88	183	452468	37	3	22	12	70
CRW_00786	-	0.74	0.70	0.78	317	1946946	215	12	76	127	133
CRW_00787	-	0.47	0.44	0.50	134	646683	154	23	113	18	172
CRW_00788	-	0.31	0.29	0.32	106	1758421	364	42	181	141	255
CRW_00789	SSU_rRNA_bacteria links to Rfam database...	0.85	0.80	0.91	357	1137392	54	3	34	17	90
CRW_00790	-	0.67	0.62	0.71	279	1803659	212	12	100	100	168
CRW_00792	-	0.41	0.39	0.43	149	1581184	327	36	162	129	234
CRW_00793	-	0.54	0.50	0.58	189	1048748	192	25	114	53	188
CRW_00794	-	0.57	0.50	0.64	123	434586	76	10	59	7	123
CRW_00795	SSU_rRNA_bacteria links to Rfam database...	0.65	0.59	0.71	232	1152596	140	14	79	47	162
CRW_00796	-	0.47	0.41	0.55	96	384827	87	6	74	7	139
CRW_00797	-	0.41	0.39	0.44	132	692956	181	21	144	16	210
CRW_00800	SSU_rRNA_eukarya links to Rfam database...	0.83	0.77	0.89	361	1401569	111	5	40	66	109
CRW_00801	-	0.72	0.68	0.76	169	438295	67	11	41	15	80
CRW_00802	-	0.69	0.64	0.75	162	460104	68	15	39	14	91
CRW_00803	-	0.69	0.64	0.75	287	1952895	243	11	83	149	162
CRW_00804	-	0.26	0.23	0.30	94	1420143	299	34	184	81	309
CRW_00806	-	0.69	0.64	0.75	287	1913565	227	11	83	133	162
CRW_00807	-	0.59	0.56	0.62	224	1391587	214	15	120	79	174
CRW_00808	-	0.35	0.33	0.38	117	1301385	278	50	139	89	239
CRW_00813	-	0.36	0.39	0.33	52	530805	210	44	64	102	81
CRW_00849	SSU_rRNA_bacteria links to Rfam database...	0.93	0.90	0.96	425	1117816	31	1	18	12	45
CRW_00997	SSU_rRNA_bacteria links to Rfam database...	0.92	0.90	0.95	419	1135835	28	6	18	4	45
CRW_01134	-	0.68	0.63	0.75	267	964999	103	10	79	14	160
CRW_01153	SSU_rRNA_eukarya links to Rfam database...	0.41	0.40	0.43	199	1606068	288	37	224	27	304
CRW_01168	-	0.79	0.73	0.86	298	900806	67	5	44	18	113
CRW_01171	SSU_rRNA_eukarya links to Rfam database...	0.50	0.47	0.53	237	1593555	238	35	178	25	269
CRW_01186	-	0.81	0.76	0.87	293	836234	52	8	36	8	93
CRW_01188	-	0.50	0.46	0.54	180	837529	163	17	139	7	213
CRW_01189	-	0.58	0.54	0.63	211	862304	132	17	109	6	181
CRW_01214	-	0.79	0.73	0.87	295	931954	52	12	34	6	110
CRW_01222	-	0.59	0.54	0.66	213	912953	120	18	92	10	184
CRW_01224	-	0.76	0.70	0.83	276	912945	62	8	47	7	121
CRW_01239	-	0.56	0.51	0.61	193	840140	134	22	101	11	189
CRW_01250	-	0.79	0.71	0.88	269	781568	41	5	33	3	109
CRW_01260	-	0.73	0.64	0.82	252	912969	76	0	55	21	141
CRW_01266	-	0.78	0.73	0.84	278	818229	67	5	48	14	103
CRW_01271	-	0.58	0.54	0.63	205	827215	135	18	103	14	176
CRW_01275	-	0.79	0.74	0.84	321	1082273	75	15	47	13	111
CRW_01283	-	0.80	0.73	0.87	299	963624	64	6	37	21	110
CRW_01300	SSU_rRNA_eukarya links to Rfam database...	0.38	0.36	0.40	185	1693252	309	52	231	26	330
CRW_01314	-	0.69	0.61	0.78	249	937446	74	11	59	4	158
CRW_01343	SSU_rRNA_archaea links to Rfam database...	0.82	0.76	0.89	328	977531	59	6	36	17	106
CRW_01344	-	0.67	0.62	0.73	226	791602	94	9	74	11	140
PDB_00409	-	0.60	0.61	0.60	149	688301	225	27	74	124	96
PDB_00703	SSU_rRNA_bacteria links to Rfam database...	0.87	0.79	0.96	392	1073435	37	4	14	19	103
PDB_00805	-	0.65	0.61	0.69	183	467763	101	10	72	19	119
PDB_00854	SSU_rRNA_bacteria links to Rfam database...	0.90	0.85	0.95	455	1500298	52	7	18	27	80
PDB_01088	SSU_rRNA_bacteria links to Rfam database...	0.85	0.78	0.93	426	1471011	64	4	29	31	121
PDB_01103	SSU_rRNA_bacteria links to Rfam database...	0.86	0.81	0.91	455	1606027	68	3	43	22	107
PDB_01105	SSU_rRNA_bacteria links to Rfam database...	0.90	0.85	0.96	459	1433493	36	3	16	17	81
PDB_01120	SSU_rRNA_bacteria links to Rfam database...	0.88	0.80	0.97	422	1204693	33	2	11	20	105
PDB_01261	-	0.68	0.58	0.79	196	467781	51	4	47	0	140
PDB_01273	SSU_rRNA_bacteria links to Rfam database...	0.86	0.78	0.94	385	1117852	50	4	19	27	106

^top

Performance of CentroidFold - scored lower in this pairwise comparison

1. Total counts & total scores for CentroidFold

Total Base Pair Counts
Total TP	27377
Total TN	203257327
Total FP	33369
Total FP CONTRA	3870
Total FP INCONS	20847
Total FP COMP	8652
Total FN	45360

Total Scores
MCC	0.445
Average MCC ± 95% Confidence Intervals	0.453 ± 0.020
Sensitivity	0.376
Positive Predictive Value	0.526
Nr of predictions	199

^top

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

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
CRW_00002	-	0.61	0.42	0.87	112	408931	51	0	17	34	152
CRW_00024	SSU_rRNA_archaea links to Rfam database...	0.79	0.76	0.83	347	1085183	108	8	63	37	111
CRW_00034	SSU_rRNA_bacteria links to Rfam database...	0.68	0.66	0.71	312	1141875	159	19	110	30	162
CRW_00048	SSU_rRNA_bacteria links to Rfam database...	0.60	0.49	0.75	230	1170907	91	8	70	13	240
CRW_00054	SSU_rRNA_bacteria links to Rfam database...	0.56	0.49	0.64	223	1107466	140	16	111	13	233
CRW_00059	SSU_rRNA_bacteria links to Rfam database...	0.60	0.51	0.71	241	1172408	111	9	88	14	232
CRW_00061	SSU_rRNA_bacteria links to Rfam database...	0.64	0.57	0.72	269	1181581	110	23	80	7	207
CRW_00068	SSU_rRNA_bacteria links to Rfam database...	0.55	0.49	0.63	225	1108945	147	19	116	12	232
CRW_00096	SSU_rRNA_bacteria links to Rfam database...	0.56	0.49	0.63	228	1178519	155	15	118	22	237
CRW_00140	SSU_rRNA_bacteria links to Rfam database...	0.59	0.49	0.70	226	1135957	106	11	84	11	237
CRW_00141	SSU_rRNA_bacteria links to Rfam database...	0.63	0.56	0.70	268	1201642	136	16	99	21	208
CRW_00150	SSU_rRNA_bacteria links to Rfam database...	0.55	0.47	0.66	217	1152591	126	17	96	13	249
CRW_00152	SSU_rRNA_bacteria links to Rfam database...	0.51	0.42	0.62	200	1180095	129	14	107	8	271
CRW_00166	SSU_rRNA_bacteria links to Rfam database...	0.61	0.53	0.70	247	1190845	120	6	98	16	221
CRW_00173	SSU_rRNA_bacteria links to Rfam database...	0.35	0.31	0.39	139	1082299	226	23	195	8	306
CRW_00177	SSU_rRNA_bacteria links to Rfam database...	0.52	0.45	0.59	213	1178522	162	17	128	17	260
CRW_00196	SSU_rRNA_bacteria links to Rfam database...	0.59	0.52	0.67	247	1207869	131	18	101	12	228
CRW_00230	SSU_rRNA_bacteria links to Rfam database...	0.59	0.52	0.67	250	1198552	140	19	105	16	228
CRW_00245	SSU_rRNA_bacteria links to Rfam database...	0.56	0.49	0.65	221	1105989	128	13	105	10	232
CRW_00248	SSU_rRNA_bacteria links to Rfam database...	0.66	0.61	0.71	296	1218724	154	20	101	33	188
CRW_00250	SSU_rRNA_bacteria links to Rfam database...	0.57	0.50	0.66	237	1198568	130	20	101	9	241
CRW_00256	SSU_rRNA_bacteria links to Rfam database...	0.45	0.35	0.57	165	1192449	145	20	106	19	303
CRW_00270	SSU_rRNA_bacteria links to Rfam database...	0.67	0.57	0.79	260	1111955	83	11	60	12	195
CRW_00271	SSU_rRNA_bacteria links to Rfam database...	0.48	0.41	0.55	190	1122405	171	26	130	15	272
CRW_00273	SSU_rRNA_bacteria links to Rfam database...	0.51	0.43	0.60	194	1085280	142	14	113	15	252
CRW_00275	SSU_rRNA_bacteria links to Rfam database...	0.62	0.54	0.70	249	1114913	130	13	96	21	208
CRW_00277	SSU_rRNA_bacteria links to Rfam database...	0.48	0.36	0.64	165	1110536	105	15	79	11	288
CRW_00278	SSU_rRNA_bacteria links to Rfam database...	0.49	0.41	0.57	186	1129931	157	13	126	18	264
CRW_00279	SSU_rRNA_bacteria links to Rfam database...	0.54	0.45	0.64	209	1180088	132	19	100	13	255
CRW_00280	SSU_rRNA_bacteria links to Rfam database...	0.53	0.42	0.67	192	1117973	105	9	86	10	261
CRW_00281	SSU_rRNA_bacteria links to Rfam database...	0.62	0.57	0.68	265	1144950	146	18	108	20	199
CRW_00283	SSU_rRNA_bacteria links to Rfam database...	0.40	0.32	0.51	138	1015753	153	22	112	19	294
CRW_00284	SSU_rRNA_bacteria links to Rfam database...	0.48	0.36	0.65	162	1131511	101	11	76	14	294
CRW_00285	SSU_rRNA_bacteria links to Rfam database...	0.67	0.59	0.76	268	1117909	98	16	67	15	190
CRW_00289	SSU_rRNA_bacteria links to Rfam database...	0.61	0.55	0.68	260	1189270	143	18	105	20	216
CRW_00292	SSU_rRNA_bacteria links to Rfam database...	0.35	0.31	0.41	141	1123903	217	34	172	11	320
CRW_00298	SSU_rRNA_eukarya links to Rfam database...	0.25	0.22	0.28	109	1620517	295	50	224	21	385
CRW_00301	SSU_rRNA_eukarya links to Rfam database...	0.48	0.39	0.58	203	1762152	211	28	120	63	316
CRW_00306	SSU_rRNA_eukarya links to Rfam database...	0.29	0.26	0.32	120	1445480	309	50	200	59	342
CRW_00310	SSU_rRNA_eukarya links to Rfam database...	0.38	0.34	0.42	178	1805524	303	44	204	55	343
CRW_00326	SSU_rRNA_eukarya links to Rfam database...	0.57	0.48	0.67	240	1627752	163	19	99	45	262
CRW_00330	SSU_rRNA_eukarya links to Rfam database...	0.30	0.25	0.36	131	1988654	302	33	197	72	386
CRW_00332	SSU_rRNA_eukarya links to Rfam database...	0.25	0.22	0.28	104	1769656	299	47	214	38	373
CRW_00333	SSU_rRNA_eukarya links to Rfam database...	0.30	0.24	0.36	125	1892139	288	29	192	67	389
CRW_00338	-	0.19	0.19	0.19	74	1053028	329	76	248	5	321
CRW_00345	SSU_rRNA_eukarya links to Rfam database...	0.41	0.37	0.45	186	1586456	267	40	189	38	312
CRW_00346	SSU_rRNA_eukarya links to Rfam database...	0.40	0.38	0.42	189	1584645	289	48	208	33	312
CRW_00348	SSU_rRNA_eukarya links to Rfam database...	0.37	0.31	0.44	157	1615148	235	27	171	37	346
CRW_00358	SSU_rRNA_eukarya links to Rfam database...	0.42	0.39	0.45	200	1674917	285	39	209	37	307
CRW_00366	SSU_rRNA_eukarya links to Rfam database...	0.34	0.31	0.38	150	1579355	289	44	204	41	332
CRW_00370	SSU_rRNA_eukarya links to Rfam database...	0.38	0.33	0.43	167	1640375	256	43	181	32	339
CRW_00371	SSU_rRNA_eukarya links to Rfam database...	0.47	0.39	0.56	194	1611562	196	29	125	42	302
CRW_00372	SSU_rRNA_eukarya links to Rfam database...	0.48	0.41	0.58	202	1625955	204	26	123	55	296
CRW_00381	-	0.44	0.37	0.53	204	2303343	267	31	153	83	353
CRW_00386	SSU_rRNA_eukarya links to Rfam database...	0.32	0.30	0.34	156	1750800	337	47	253	37	359
CRW_00403	SSU_rRNA_eukarya links to Rfam database...	0.31	0.29	0.34	135	1606132	324	52	209	63	329
CRW_00411	SSU_rRNA_eukarya links to Rfam database...	0.42	0.35	0.49	173	1615153	226	27	150	49	323
CRW_00414	SSU_rRNA_eukarya links to Rfam database...	0.42	0.36	0.48	180	1665851	239	34	160	45	315
CRW_00417	-	0.43	0.33	0.55	86	458248	77	14	55	8	176
CRW_00418	-	0.26	0.19	0.36	49	441193	89	7	81	1	211
CRW_00419	-	0.36	0.27	0.47	71	464016	84	5	74	5	194
CRW_00421	-	0.51	0.42	0.63	111	463028	80	7	57	16	155
CRW_00422	-	0.41	0.33	0.52	87	455367	99	11	70	18	176
CRW_00424	-	0.48	0.40	0.58	145	789146	122	5	100	17	218
CRW_00426	-	0.43	0.35	0.53	94	457268	91	7	77	7	171
CRW_00427	-	0.28	0.23	0.33	61	454396	136	25	99	12	200
CRW_00428	-	0.43	0.33	0.55	87	465937	79	14	57	8	173
CRW_00430	-	0.36	0.26	0.50	70	456351	73	13	56	4	196
CRW_00433	-	0.31	0.21	0.44	56	467902	74	4	66	4	207
CRW_00434	-	0.50	0.37	0.67	97	457301	54	8	40	6	166
CRW_00435	-	0.32	0.22	0.46	59	451596	77	8	62	7	206
CRW_00437	-	0.26	0.20	0.33	53	456331	112	13	93	6	207
CRW_00438	-	0.32	0.25	0.41	68	454416	105	12	85	8	200
CRW_00441	-	0.37	0.27	0.53	70	454448	67	6	57	4	192
CRW_00442	-	0.34	0.25	0.45	66	453480	92	8	74	10	195
CRW_00443	-	0.31	0.21	0.45	55	456367	78	4	64	10	205
CRW_00444	-	0.44	0.32	0.61	85	459222	61	10	44	7	178
CRW_00445	-	0.45	0.37	0.55	99	458224	87	12	68	7	166
CRW_00446	-	0.34	0.29	0.41	77	468807	124	14	98	12	188
CRW_00447	-	0.30	0.25	0.35	66	452488	131	16	106	9	194
CRW_00448	-	0.28	0.21	0.38	55	457300	97	18	73	6	206
CRW_00449	-	0.43	0.31	0.59	80	444961	60	11	44	5	180
CRW_00450	-	0.41	0.27	0.62	72	458286	58	4	41	13	190
CRW_00451	-	0.39	0.28	0.53	75	457305	72	6	60	6	189
CRW_00452	-	0.46	0.33	0.65	86	453495	63	5	42	16	176
CRW_00453	-	0.35	0.25	0.47	66	452537	84	5	68	11	195
CRW_00454	-	0.20	0.17	0.24	72	1730434	300	41	183	76	363
CRW_00456	-	0.43	0.29	0.64	78	470813	48	5	39	4	187
CRW_00457	-	0.48	0.38	0.59	101	467857	82	10	60	12	163
CRW_00458	-	0.45	0.34	0.61	89	464984	66	3	54	9	175
CRW_00459	-	0.50	0.41	0.61	109	462061	91	8	63	20	154
CRW_00460	-	0.37	0.29	0.47	157	1972757	216	24	153	39	387
CRW_00462	-	0.44	0.31	0.60	82	458267	67	4	50	13	179
CRW_00463	-	0.45	0.37	0.54	94	445867	85	17	62	6	160
CRW_00464	-	0.47	0.33	0.68	87	462113	50	4	37	9	177
CRW_00466	SSU_rRNA_bacteria links to Rfam database...	0.71	0.64	0.79	292	1116394	100	14	65	21	166
CRW_00522	-	0.29	0.24	0.36	187	3643127	351	60	276	15	595
CRW_00530	-	0.37	0.31	0.44	84	534904	119	34	73	12	184
CRW_00535	-	0.46	0.39	0.55	128	898236	125	27	79	19	200
CRW_00538	-	0.40	0.30	0.54	90	812009	98	11	65	22	210
CRW_00542	-	0.30	0.28	0.33	88	994488	198	47	132	19	229
CRW_00589	SSU_rRNA_bacteria links to Rfam database...	0.34	0.28	0.42	125	1094162	188	16	157	15	320
CRW_00590	SSU_rRNA_bacteria links to Rfam database...	0.37	0.32	0.43	143	1119420	207	36	157	14	309
CRW_00591	SSU_rRNA_bacteria links to Rfam database...	0.65	0.59	0.72	261	1098541	124	19	82	23	185
CRW_00594	-	0.25	0.24	0.27	93	1028548	271	39	215	17	302
CRW_00596	-	0.28	0.26	0.30	100	1024261	257	35	200	22	286
CRW_00597	-	0.29	0.25	0.33	103	1200164	243	22	186	35	308
CRW_00598	SSU_rRNA_eukarya links to Rfam database...	0.40	0.37	0.45	180	1665823	270	42	180	48	311
CRW_00604	-	0.86	0.84	0.88	68	411701	143	3	6	134	13
CRW_00606	-	0.94	0.90	0.99	83	559069	184	0	1	183	9
CRW_00607	-	0.85	0.75	0.95	58	536069	241	0	3	238	19
CRW_00615	-	0.90	0.83	0.97	68	553808	240	0	2	238	14
CRW_00616	-	0.60	0.57	0.63	63	1699146	369	3	34	332	47
CRW_00617	-	0.53	0.48	0.58	31	426373	170	6	16	148	33
CRW_00678	-	0.46	0.44	0.48	53	666324	233	11	47	175	68
CRW_00680	-	0.55	0.54	0.56	66	516518	178	13	39	126	56
CRW_00683	-	0.63	0.59	0.67	79	460202	174	2	37	135	56
CRW_00684	-	0.53	0.50	0.56	68	612050	219	16	37	166	67
CRW_00702	-	0.76	0.73	0.80	55	357366	141	5	9	127	20
CRW_00704	-	0.89	0.87	0.91	82	386670	176	3	5	168	12
CRW_00705	-	0.30	0.29	0.31	25	1461115	278	17	38	223	61
CRW_00706	-	0.69	0.71	0.68	42	695548	245	8	12	225	17
CRW_00709	-	0.25	0.15	0.42	13	1728839	281	0	18	263	72
CRW_00710	-	0.62	0.50	0.78	57	1040330	209	2	14	193	57
CRW_00712	-	0.47	0.48	0.46	52	952776	318	19	43	256	56
CRW_00713	-	0.82	0.72	0.94	73	731367	238	1	4	233	28
CRW_00723	-	0.57	0.50	0.66	37	1583254	319	6	13	300	37
CRW_00758	SSU_rRNA_eukarya links to Rfam database...	0.37	0.34	0.40	164	1640353	298	41	208	49	319
CRW_00759	SSU_rRNA_eukarya links to Rfam database...	0.34	0.28	0.42	134	1636828	232	34	149	49	347
CRW_00760	SSU_rRNA_eukarya links to Rfam database...	0.38	0.34	0.42	167	1638559	278	50	179	49	319
CRW_00763	SSU_rRNA_bacteria links to Rfam database...	0.39	0.29	0.53	130	1215775	153	18	97	38	316
CRW_00765	-	0.41	0.33	0.51	85	452509	86	16	66	4	172
CRW_00766	-	0.27	0.20	0.39	47	440269	88	14	61	13	193
CRW_00768	-	0.63	0.49	0.81	128	471747	57	6	25	26	131
CRW_00769	-	0.50	0.39	0.64	99	451570	74	13	43	18	153
CRW_00772	SSU_rRNA_bacteria links to Rfam database...	0.38	0.30	0.50	120	945758	137	16	106	15	284
CRW_00773	-	0.50	0.42	0.60	108	451545	87	15	57	15	151
CRW_00774	-	0.50	0.39	0.63	103	488403	77	3	57	17	160
CRW_00777	-	0.35	0.27	0.44	83	719210	137	18	89	30	221
CRW_00778	SSU_rRNA_bacteria links to Rfam database...	0.54	0.38	0.77	146	1201835	66	6	38	22	238
CRW_00779	-	0.39	0.33	0.46	139	1031464	177	19	144	14	283
CRW_00780	-	0.34	0.28	0.42	71	475629	114	18	82	14	184
CRW_00781	-	0.24	0.20	0.28	90	1978732	354	40	193	121	360
CRW_00783	-	0.40	0.29	0.55	75	453491	73	7	55	11	184
CRW_00784	-	0.42	0.33	0.54	87	456330	83	15	58	10	175
CRW_00785	-	0.52	0.39	0.70	99	452535	48	8	34	6	154
CRW_00786	-	0.37	0.32	0.44	143	1947024	334	24	160	150	307
CRW_00787	-	0.50	0.40	0.63	123	646759	83	6	65	12	183
CRW_00788	-	0.36	0.28	0.47	100	1758537	290	20	93	177	261
CRW_00789	SSU_rRNA_bacteria links to Rfam database...	0.51	0.40	0.65	179	1137510	120	5	92	23	268
CRW_00790	-	0.23	0.20	0.28	89	1803728	328	38	195	95	358
CRW_00792	-	0.34	0.29	0.41	110	1581265	294	19	137	138	273
CRW_00793	-	0.53	0.44	0.66	164	1048826	147	21	65	61	213
CRW_00794	-	0.36	0.29	0.44	72	434613	106	13	80	13	174
CRW_00795	SSU_rRNA_bacteria links to Rfam database...	0.35	0.28	0.44	110	1152672	173	15	124	34	284
CRW_00796	-	0.36	0.23	0.57	55	384906	60	0	42	18	180
CRW_00797	-	0.35	0.27	0.44	94	693037	141	20	102	19	248
CRW_00800	SSU_rRNA_eukarya links to Rfam database...	0.58	0.49	0.69	230	1401641	149	10	94	45	240
CRW_00801	-	0.45	0.38	0.53	94	438339	92	22	61	9	155
CRW_00802	-	0.37	0.30	0.46	76	460153	109	16	75	18	177
CRW_00803	-	0.26	0.24	0.29	106	1952914	338	51	205	82	343
CRW_00804	-	0.43	0.33	0.56	131	1420222	169	12	90	67	272
CRW_00806	-	0.30	0.24	0.38	109	1913657	271	31	149	91	340
CRW_00807	-	0.50	0.39	0.64	157	1391701	161	15	73	73	241
CRW_00808	-	0.35	0.28	0.45	98	1301474	199	30	89	80	258
CRW_00813	-	0.45	0.42	0.48	56	530849	163	27	33	103	77
CRW_00849	SSU_rRNA_bacteria links to Rfam database...	0.59	0.56	0.62	265	1117830	190	14	151	25	205
CRW_00997	SSU_rRNA_bacteria links to Rfam database...	0.63	0.55	0.72	256	1135921	119	15	86	18	208
CRW_01134	-	0.38	0.30	0.48	127	965091	143	26	111	6	300
CRW_01153	SSU_rRNA_eukarya links to Rfam database...	0.41	0.37	0.45	185	1606114	268	39	190	39	318
CRW_01168	-	0.53	0.44	0.63	182	900865	124	17	89	18	229
CRW_01171	SSU_rRNA_eukarya links to Rfam database...	0.46	0.41	0.52	206	1593608	228	40	151	37	300
CRW_01186	-	0.40	0.34	0.47	131	836292	164	14	134	16	255
CRW_01188	-	0.21	0.19	0.23	76	837538	253	40	211	2	317
CRW_01189	-	0.25	0.22	0.28	86	862335	227	38	182	7	306
CRW_01214	-	0.33	0.27	0.41	110	932028	163	16	141	6	295
CRW_01222	-	0.31	0.26	0.38	103	913006	171	35	132	4	294
CRW_01224	-	0.43	0.34	0.55	133	913033	118	11	99	8	264
CRW_01239	-	0.25	0.19	0.32	74	840222	162	22	138	2	308
CRW_01250	-	0.48	0.39	0.59	147	781625	116	11	92	13	231
CRW_01260	-	0.21	0.16	0.27	63	913043	183	23	147	13	330
CRW_01266	-	0.36	0.34	0.38	129	818217	229	37	177	15	252
CRW_01271	-	0.37	0.32	0.42	122	827252	174	25	142	7	259
CRW_01275	-	0.40	0.36	0.45	154	1082311	205	36	155	14	278
CRW_01283	-	0.36	0.28	0.46	114	963716	147	18	118	11	295
CRW_01300	SSU_rRNA_eukarya links to Rfam database...	0.41	0.37	0.45	192	1693289	291	56	183	52	323
CRW_01314	-	0.28	0.22	0.34	91	937500	180	20	154	6	316
CRW_01343	SSU_rRNA_archaea links to Rfam database...	0.46	0.41	0.52	176	977564	173	23	138	12	258
CRW_01344	-	0.27	0.22	0.33	81	791667	168	23	140	5	285
PDB_00409	-	0.36	0.40	0.32	98	688245	284	64	144	76	147
PDB_00703	SSU_rRNA_bacteria links to Rfam database...	0.55	0.49	0.61	244	1073448	180	13	140	27	251
PDB_00805	-	0.68	0.60	0.76	182	467790	85	2	54	29	120
PDB_00854	SSU_rRNA_bacteria links to Rfam database...	0.53	0.49	0.57	264	1500316	234	15	183	36	271
PDB_01088	SSU_rRNA_bacteria links to Rfam database...	0.46	0.39	0.55	215	1471076	203	25	154	24	332
PDB_01103	SSU_rRNA_bacteria links to Rfam database...	0.57	0.53	0.61	297	1606045	214	20	166	28	265
PDB_01105	SSU_rRNA_bacteria links to Rfam database...	0.62	0.57	0.68	307	1433517	177	8	139	30	233
PDB_01120	SSU_rRNA_bacteria links to Rfam database...	0.49	0.42	0.59	220	1204752	177	19	137	21	307
PDB_01261	-	0.77	0.64	0.92	216	467794	23	1	17	5	120
PDB_01273	SSU_rRNA_bacteria links to Rfam database...	0.51	0.47	0.56	229	1117849	211	14	168	29	262

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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 ContextFold - scored higher in this pairwise comparison

1. Total counts & total scores for ContextFold

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

Performance of CentroidFold - scored lower in this pairwise comparison

1. Total counts & total scores for CentroidFold

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