CompaRNA - on-line benchmarks of RNA structure prediction methods

Laboratory of Structural Bioinformatics @ Adam Mickiewicz University in Poznan

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Overview

Metric	CRWrnafold		Carnac(seed)
MCC	0.504	>	0.215
Average MCC ± 95% Confidence Intervals	0.516 ± 0.033	>	0.179 ± 0.038
Sensitivity	0.507	>	0.055
Positive Predictive Value	0.503	<	0.850
Total TP	8327	>	897
Total TN	9094792	<	9110291
Total FP	9660	>	279
Total FP CONTRA	1418	>	18
Total FP INCONS	6809	>	140
Total FP COMP	1433	>	121
Total FN	8081	<	15511
P-value	3.56938820447e-08

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Performance plots

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

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Performance of CRWrnafold - scored higher in this pairwise comparison

1. Total counts & total scores for CRWrnafold

Total Base Pair Counts
Total TP	8327
Total TN	9094792
Total FP	9660
Total FP CONTRA	1418
Total FP INCONS	6809
Total FP COMP	1433
Total FN	8081

Total Scores
MCC	0.504
Average MCC ± 95% Confidence Intervals	0.516 ± 0.033
Sensitivity	0.507
Positive Predictive Value	0.503
Nr of predictions	268

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

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
ASE_00001	RNaseP_arch links to Rfam database...	0.61	0.57	0.64	43	34124	30	3	21	6	32
ASE_00002	RNaseP_arch links to Rfam database...	0.59	0.56	0.63	41	35446	31	2	22	7	32
ASE_00009	RNaseP_arch links to Rfam database...	0.68	0.67	0.69	45	26041	20	5	15	0	22
ASE_00014	RNaseP_arch links to Rfam database...	0.47	0.47	0.47	50	54179	57	7	49	1	56
ASE_00116	RNaseP_arch links to Rfam database...	0.04	0.05	0.05	3	31562	66	6	55	5	63
ASE_00120	RNaseP_arch links to Rfam database...	0.58	0.55	0.60	52	46885	34	4	30	0	42
ASE_00121	RNaseP_arch links to Rfam database...	0.43	0.42	0.43	39	45059	57	6	46	5	53
ASE_00145	RNaseP_arch links to Rfam database...	0.36	0.35	0.36	39	70018	73	5	63	5	72
ASE_00148	RNaseP_arch links to Rfam database...	0.48	0.47	0.50	72	112432	71	10	61	0	82
ASE_00154	RNaseP_arch links to Rfam database...	0.44	0.43	0.45	46	65239	60	4	52	4	61
ASE_00155	RNaseP_arch links to Rfam database...	0.40	0.40	0.41	57	93388	86	10	73	3	85
ASE_00187	RNaseP_arch links to Rfam database...	0.33	0.31	0.35	36	68531	71	6	62	3	79
ASE_00191	RNaseP_arch links to Rfam database...	0.55	0.54	0.57	33	29588	34	5	20	9	28
ASE_00196	RNaseP_arch links to Rfam database...	0.80	0.79	0.81	59	31553	20	2	12	6	16
ASE_00205	RNaseP_arch links to Rfam database...	0.45	0.46	0.44	41	45963	55	8	44	3	49
ASE_00209	RNaseP_arch links to Rfam database...	0.37	0.35	0.39	31	42992	50	4	44	2	57
ASE_00210	RNaseP_arch links to Rfam database...	0.48	0.48	0.49	31	27198	38	3	29	6	34
ASE_00213	RNaseP_arch links to Rfam database...	0.60	0.61	0.60	40	27194	28	6	21	1	26
ASE_00222	RNaseP_arch links to Rfam database...	0.62	0.61	0.63	96	111949	60	4	52	4	61
ASE_00346	RNaseP_arch links to Rfam database...	0.45	0.44	0.47	43	48113	53	5	44	4	54
ASE_00359	RNaseP_arch links to Rfam database...	0.27	0.28	0.27	22	42695	61	8	53	0	58
ASE_00360	RNaseP_arch links to Rfam database...	0.30	0.29	0.30	19	29340	46	10	34	2	46
ASE_00417	RNaseP_arch links to Rfam database...	0.48	0.48	0.48	48	54515	54	8	44	2	52
ASE_00418	RNaseP_arch links to Rfam database...	0.18	0.19	0.17	14	38699	70	7	61	2	61
CRW_00013	Intron_gpI links to Rfam database...	0.24	0.25	0.24	29	103617	106	20	74	12	86
CRW_00016	Intron_gpI links to Rfam database...	0.59	0.56	0.61	67	77312	55	6	36	13	53
CRW_00610	Intron_gpI links to Rfam database...	0.46	0.44	0.48	36	36240	39	7	32	0	45
CRW_00613	Intron_gpI links to Rfam database...	0.79	0.74	0.84	58	34911	19	0	11	8	20
CRW_00614	Intron_gpI links to Rfam database...	0.09	0.11	0.08	6	121691	140	26	48	66	51
CRW_00618	Intron_gpI links to Rfam database...	0.20	0.21	0.19	13	56212	77	12	43	22	48
CRW_00619	Intron_gpI links to Rfam database...	0.23	0.26	0.20	19	164932	156	20	54	82	54
CRW_00620	Intron_gpI links to Rfam database...	0.17	0.21	0.14	13	150882	154	25	55	74	50
CRW_00621	Intron_gpI links to Rfam database...	0.17	0.17	0.17	12	153109	150	13	47	90	59
CRW_00623	Intron_gpI links to Rfam database...	0.13	0.14	0.11	12	129686	140	24	73	43	71
CRW_00633	Intron_gpI links to Rfam database...	0.39	0.42	0.38	44	63429	73	15	58	0	62
CRW_00634	Intron_gpI links to Rfam database...	0.25	0.28	0.22	26	64504	92	23	67	2	68
CRW_00670	Intron_gpI links to Rfam database...	0.45	0.47	0.44	56	69999	70	9	61	0	64
CRW_00671	Intron_gpI links to Rfam database...	0.61	0.58	0.64	68	62728	44	7	32	5	49
CRW_00672	Intron_gpI links to Rfam database...	0.76	0.77	0.75	85	72276	39	6	23	10	26
CRW_00674	Intron_gpI links to Rfam database...	0.55	0.55	0.56	68	83314	58	12	42	4	56
CRW_00676	Intron_gpI links to Rfam database...	0.52	0.57	0.47	65	93390	78	24	49	5	50
CRW_00692	Intron_gpI links to Rfam database...	0.39	0.40	0.39	36	68542	75	10	47	18	54
CRW_01484	5S_rRNA links to Rfam database...	0.57	0.54	0.62	21	7469	13	0	13	0	18
CRW_01499	5S_rRNA links to Rfam database...	0.58	0.56	0.61	23	7963	16	3	12	1	18
CRW_01603	5S_rRNA links to Rfam database...	0.80	0.76	0.85	28	7107	8	0	5	3	9
PDB_00005	Tymo_tRNA-like links to Rfam database...	0.88	0.79	1.00	11	935	0	0	0	0	3
PDB_00012	mir-TAR links to Rfam database...	1.00	1.00	1.00	7	399	3	0	0	3	0
PDB_00213	Gammaretro_CES links to Rfam database...	0.92	0.85	1.00	35	5015	0	0	0	0	6
PDB_00553	mir-TAR links to Rfam database...	1.00	1.00	1.00	11	454	0	0	0	0	0
PDB_00716	HDV_ribozyme links to Rfam database...	-0.01	0.00	0.00	0	2680	22	0	21	1	23
PDB_00810	s2m links to Rfam database...	0.67	0.59	0.77	10	1068	3	0	3	0	7
PDB_00827	Intron_gpI links to Rfam database...	0.69	0.63	0.76	51	26961	18	0	16	2	30
PDB_01001	tRNA links to Rfam database...	0.52	0.56	0.50	10	2125	10	3	7	0	8
PDB_01050	UnaL2 links to Rfam database...	0.92	0.85	1.00	11	619	1	0	0	1	2
PDB_01051	Telomerase-cil links to Rfam database...	0.79	0.69	0.90	9	893	5	0	1	4	4
PDB_01092	glmS links to Rfam database...	0.68	0.62	0.76	32	10111	12	1	9	2	20
PDB_01152	HIV_FS2 links to Rfam database...	0.88	0.79	1.00	11	550	0	0	0	0	3
RFA_00389	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	2	0	0	2	0
RFA_00390	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	2	0	0	2	0
RFA_00391	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1418	2	0	0	2	2
RFA_00409	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1418	1	0	0	1	2
RFA_00416	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1470	3	0	0	3	0
RFA_00433	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	2	0	0	2	0
RFA_00434	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	2	0	0	2	0
RFA_00436	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	2	0	0	2	0
RFA_00440	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1470	2	0	0	2	0
RFA_00442	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	2	0	0	2	0
RFA_00446	Hammerhead_3 links to Rfam database...	0.97	0.93	1.00	14	1471	2	0	0	2	1
RFA_00449	Hammerhead_3 links to Rfam database...	0.97	0.93	1.00	14	1471	2	0	0	2	1
RFA_00587	Y_RNA links to Rfam database...	1.00	1.00	1.00	15	4836	12	0	0	12	0
RFA_00597	Telomerase-vert links to Rfam database...	0.23	0.26	0.21	28	97771	118	29	75	14	81
RFA_00598	Telomerase-vert links to Rfam database...	0.35	0.37	0.34	37	84557	94	11	61	22	64
RFA_00599	Telomerase-vert links to Rfam database...	0.69	0.72	0.67	80	101355	60	17	23	20	31
RFA_00600	Telomerase-vert links to Rfam database...	0.26	0.30	0.23	30	120165	121	30	70	21	70
RFA_00601	Telomerase-vert links to Rfam database...	0.51	0.54	0.50	61	99112	81	10	52	19	53
RFA_00602	Telomerase-vert links to Rfam database...	0.50	0.53	0.47	61	101346	90	13	55	22	55
RFA_00603	Telomerase-cil links to Rfam database...	0.27	0.29	0.26	10	13491	31	8	21	2	25
RFA_00604	Telomerase-cil links to Rfam database...	0.61	0.63	0.59	22	13493	26	2	13	11	13
RFA_00605	Telomerase-cil links to Rfam database...	0.34	0.34	0.34	12	15190	36	4	19	13	23
RFA_00606	Telomerase-cil links to Rfam database...	0.41	0.46	0.37	18	21272	38	17	14	7	21
RFA_00607	Telomerase-cil links to Rfam database...	0.29	0.31	0.28	11	17726	39	5	24	10	25
RFA_00609	Telomerase-cil links to Rfam database...	0.52	0.57	0.48	21	17911	36	8	15	13	16
RFA_00610	Telomerase-cil links to Rfam database...	0.52	0.54	0.50	20	17165	33	4	16	13	17
RFA_00611	Telomerase-cil links to Rfam database...	0.45	0.49	0.43	17	13001	27	8	15	4	18
RFA_00613	Telomerase-cil links to Rfam database...	0.43	0.43	0.44	15	12846	26	8	11	7	20
RFA_00615	Telomerase-cil links to Rfam database...	0.27	0.29	0.26	10	13328	29	7	21	1	25
RFA_00620	Telomerase-cil links to Rfam database...	0.55	0.59	0.51	23	21900	40	4	18	18	16
RFA_00621	RNase_MRP links to Rfam database...	0.40	0.39	0.41	30	46286	60	7	37	16	46
RFA_00623	RNase_MRP links to Rfam database...	0.28	0.29	0.28	23	43873	71	5	55	11	55
RFA_00624	RNase_MRP links to Rfam database...	0.23	0.25	0.22	15	30067	58	11	42	5	46
RFA_00626	rne5 links to Rfam database...	0.64	0.63	0.65	55	56532	42	8	21	13	32
RFA_00627	rne5 links to Rfam database...	0.65	0.63	0.67	55	56871	42	6	21	15	32
RFA_00628	rne5 links to Rfam database...	0.89	0.85	0.94	73	57213	30	0	5	25	13
RFA_00630	rne5 links to Rfam database...	0.57	0.57	0.57	50	56865	51	12	26	13	37
RFA_00632	HDV_ribozyme links to Rfam database...	0.37	0.36	0.38	10	4069	19	0	16	3	18
RFA_00636	HDV_ribozyme links to Rfam database...	0.51	0.50	0.52	14	3978	13	3	10	0	14
RFA_00639	7SK links to Rfam database...	0.11	0.11	0.11	10	54524	86	13	68	5	77
RFA_00642	Vimentin3 links to Rfam database...	0.17	0.17	0.18	3	2909	17	0	14	3	15
RFA_00643	Vimentin3 links to Rfam database...	0.24	0.22	0.27	4	2196	12	2	9	1	14
RFA_00644	Vimentin3 links to Rfam database...	0.21	0.22	0.21	4	2682	15	4	11	0	14
RFA_00645	Vimentin3 links to Rfam database...	-0.01	0.00	0.00	0	2401	14	2	12	0	18
RFA_00649	Vimentin3 links to Rfam database...	0.57	0.56	0.59	10	2128	7	1	6	0	8
RFA_00651	Vimentin3 links to Rfam database...	0.35	0.33	0.38	6	2064	10	1	9	0	12
RFA_00653	Vimentin3 links to Rfam database...	0.35	0.33	0.38	6	2129	10	2	8	0	12
RFA_00654	Vimentin3 links to Rfam database...	0.26	0.28	0.26	5	2396	14	2	12	0	13
RFA_00658	Hammerhead_1 links to Rfam database...	0.59	0.50	0.70	7	1118	4	0	3	1	7
RFA_00659	Hammerhead_1 links to Rfam database...	0.18	0.14	0.25	2	1120	8	0	6	2	12
RFA_00664	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	980	11	0	10	1	14
RFA_00667	Hammerhead_1 links to Rfam database...	0.30	0.29	0.33	4	978	9	1	7	1	10
RFA_00668	Hammerhead_1 links to Rfam database...	0.46	0.43	0.50	6	978	6	0	6	0	8
RFA_00672	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	897	6	0	6	0	13
RFA_00673	Hammerhead_1 links to Rfam database...	0.47	0.36	0.63	5	1120	4	0	3	1	9
RFA_00674	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	1118	10	0	10	0	14
RFA_00675	Hammerhead_1 links to Rfam database...	0.29	0.29	0.31	4	977	9	1	8	0	10
RFA_00677	Hammerhead_1 links to Rfam database...	0.69	0.64	0.75	9	978	5	0	3	2	5
RFA_00678	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	941	5	0	5	0	14
RFA_00680	Hammerhead_1 links to Rfam database...	0.74	0.71	0.77	10	1115	6	0	3	3	4
RFA_00684	Hammerhead_1 links to Rfam database...	0.72	0.64	0.82	9	979	3	0	2	1	5
RFA_00685	Hammerhead_1 links to Rfam database...	0.42	0.36	0.50	5	980	6	0	5	1	9
RFA_00695	Hammerhead_1 links to Rfam database...	0.67	0.64	0.69	9	7008	28	1	3	24	5
RFA_00703	Hammerhead_1 links to Rfam database...	0.67	0.64	0.69	9	4265	18	1	3	14	5
RFA_00704	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	981	10	0	9	1	14
RFA_00705	Hammerhead_1 links to Rfam database...	0.74	0.71	0.77	10	1022	4	0	3	1	4
RFA_00706	Hammerhead_1 links to Rfam database...	0.33	0.29	0.40	4	1025	6	0	6	0	10
RFA_00707	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	1024	11	3	8	0	14
RFA_00708	Hammerhead_1 links to Rfam database...	0.35	0.29	0.44	4	1026	6	0	5	1	10
RFA_00709	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	982	9	0	8	1	14
RFA_00710	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	980	10	0	10	0	14
RFA_00711	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	1024	11	0	11	0	14
RFA_00715	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	936	10	0	10	0	14
RFA_00716	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	939	7	0	7	0	14
RFA_00717	Hammerhead_1 links to Rfam database...	0.31	0.29	0.36	4	892	8	0	7	1	10
RFA_00730	s2m links to Rfam database...	0.69	0.67	0.73	8	892	4	1	2	1	4
RFA_00731	s2m links to Rfam database...	0.41	0.42	0.42	5	891	8	3	4	1	7
RFA_00733	s2m links to Rfam database...	0.69	0.67	0.73	8	892	4	1	2	1	4
RFA_00734	s2m links to Rfam database...	0.64	0.67	0.62	8	890	5	1	4	0	4
RFA_00736	s2m links to Rfam database...	0.41	0.42	0.42	5	891	8	3	4	1	7
RFA_00737	s2m links to Rfam database...	0.81	0.67	1.00	8	895	1	0	0	1	4
RFA_00745	s2m links to Rfam database...	0.69	0.67	0.73	8	935	4	1	2	1	4
RFA_00749	s2m links to Rfam database...	0.41	0.42	0.42	5	891	8	3	4	1	7
RFA_00758	s2m links to Rfam database...	0.63	0.58	0.70	7	893	3	1	2	0	5
RFA_00762	s2m links to Rfam database...	0.64	0.67	0.62	8	890	5	1	4	0	4
RFA_00763	s2m links to Rfam database...	0.69	0.67	0.73	8	892	3	1	2	0	4
RFA_00764	s2m links to Rfam database...	0.69	0.67	0.73	8	892	4	1	2	1	4
RFA_00765	s2m links to Rfam database...	0.81	0.67	1.00	8	895	1	0	0	1	4
RFA_00767	Corona_pk3 links to Rfam database...	0.59	0.56	0.63	10	1875	6	3	3	0	8
RFA_00768	Corona_pk3 links to Rfam database...	0.47	0.44	0.50	8	1875	8	1	7	0	10
RFA_00769	Corona_pk3 links to Rfam database...	0.54	0.56	0.53	10	1934	9	4	5	0	8
RFA_00770	Corona_pk3 links to Rfam database...	-0.01	0.00	0.00	0	2002	17	1	13	3	18
RFA_00773	Corona_pk3 links to Rfam database...	0.59	0.56	0.63	10	1937	6	1	5	0	8
RFA_00779	Corona_pk3 links to Rfam database...	0.59	0.56	0.63	10	1937	6	3	3	0	8
RFA_00781	Gammaretro_CES links to Rfam database...	0.74	0.75	0.73	24	5017	9	2	7	0	8
RFA_00786	Gammaretro_CES links to Rfam database...	0.17	0.16	0.19	5	5024	21	1	20	0	27
RFA_00791	Gammaretro_CES links to Rfam database...	0.46	0.44	0.48	14	5122	15	0	15	0	18
RFA_00792	Gammaretro_CES links to Rfam database...	0.94	0.94	0.94	30	5018	4	0	2	2	2
RFA_00801	Gammaretro_CES links to Rfam database...	0.38	0.34	0.42	11	5024	16	1	14	1	21
RFA_00805	RNAIII links to Rfam database...	0.48	0.48	0.49	72	133238	87	7	69	11	78
RFA_00808	RydC links to Rfam database...	-0.01	0.00	0.00	0	2000	18	2	14	2	16
RFA_00809	RydC links to Rfam database...	0.40	0.38	0.43	6	2131	8	1	7	0	10
RFA_00814	R2_retro_el links to Rfam database...	0.24	0.27	0.21	11	25148	48	10	31	7	30
RFA_00815	R2_retro_el links to Rfam database...	0.36	0.41	0.31	17	24477	49	6	31	12	24
RFA_00816	R2_retro_el links to Rfam database...	0.21	0.24	0.19	10	23166	50	20	24	6	31
RFA_00817	R2_retro_el links to Rfam database...	0.10	0.12	0.08	5	21883	57	17	40	0	36
RFA_00818	R2_retro_el links to Rfam database...	0.00	0.00	0.00	0	20249	56	19	33	4	41
RFA_00819	R2_retro_el links to Rfam database...	0.44	0.44	0.44	18	27925	57	0	23	34	23
RFA_00820	bicoid_3 links to Rfam database...	0.65	0.64	0.66	103	151368	68	8	46	14	57
RFA_00830	bicoid_3 links to Rfam database...	0.54	0.50	0.59	77	152498	101	6	47	48	77
SPR_00020	tRNA links to Rfam database...	0.58	0.60	0.57	12	2680	9	1	8	0	8
SPR_00137	tRNA links to Rfam database...	0.56	0.62	0.52	13	2901	15	4	8	3	8
SPR_00273	tRNA links to Rfam database...	0.31	0.33	0.30	7	2827	17	0	16	1	14
SPR_00394	tRNA links to Rfam database...	0.30	0.33	0.28	7	3630	20	8	10	2	14
SPR_00402	tRNA links to Rfam database...	0.74	0.76	0.73	16	2534	9	0	6	3	5
SPR_00721	tRNA links to Rfam database...	0.98	0.95	1.00	20	2906	2	0	0	2	1
SPR_00816	tRNA links to Rfam database...	0.32	0.35	0.29	7	3462	20	5	12	3	13
SRP_00009	Plant_SRP links to Rfam database...	0.45	0.45	0.45	46	46562	60	9	48	3	56
SRP_00011	Plant_SRP links to Rfam database...	0.31	0.31	0.32	32	46259	69	6	63	0	72
SRP_00012	Plant_SRP links to Rfam database...	0.52	0.50	0.53	51	46264	47	8	37	2	50
SRP_00015	Plant_SRP links to Rfam database...	0.40	0.37	0.44	37	46275	54	1	47	6	62
SRP_00016	Archaea_SRP links to Rfam database...	0.86	0.83	0.88	91	47792	14	0	12	2	18
SRP_00018	Fungi_SRP links to Rfam database...	0.44	0.43	0.45	35	38426	48	8	34	6	46
SRP_00019	Fungi_SRP links to Rfam database...	0.48	0.47	0.50	43	35960	46	6	37	3	48
SRP_00020	Bacteria_small_SRP links to Rfam database...	0.93	0.94	0.91	31	5531	3	1	2	0	2
SRP_00058	Bacteria_small_SRP links to Rfam database...	0.87	0.88	0.86	30	5743	9	1	4	4	4
SRP_00069	Fungi_SRP links to Rfam database...	0.75	0.74	0.77	63	34371	21	3	16	2	22
SRP_00070	Fungi_SRP links to Rfam database...	0.06	0.07	0.06	9	126601	148	35	111	2	112
SRP_00073	Fungi_SRP links to Rfam database...	0.48	0.51	0.46	36	38981	52	13	30	9	35
SRP_00079	Plant_SRP links to Rfam database...	0.47	0.47	0.48	41	41819	53	3	42	8	47
SRP_00084	Bacteria_small_SRP links to Rfam database...	0.90	0.91	0.89	31	5425	4	1	3	0	3
SRP_00085	Plant_SRP links to Rfam database...	0.37	0.37	0.39	37	45355	63	4	55	4	64
SRP_00087	Fungi_SRP links to Rfam database...	0.10	0.12	0.09	7	37322	79	22	50	7	51
SRP_00091	Fungi_SRP links to Rfam database...	0.76	0.78	0.75	74	52876	30	4	21	5	21
SRP_00099	Plant_SRP links to Rfam database...	0.61	0.63	0.59	60	44749	44	6	35	3	35
SRP_00104	Fungi_SRP links to Rfam database...	0.43	0.45	0.41	31	34377	52	8	37	7	38
SRP_00105	Bacteria_small_SRP links to Rfam database...	0.75	0.76	0.74	26	5530	9	1	8	0	8
SRP_00124	Metazoa_SRP links to Rfam database...	0.30	0.29	0.30	25	37046	57	8	49	0	60
SRP_00127	Fungi_SRP links to Rfam database...	0.63	0.64	0.62	76	72267	53	9	38	6	43
SRP_00130	Archaea_SRP links to Rfam database...	0.74	0.73	0.76	71	49676	27	0	23	4	26
SRP_00134	Bacteria_large_SRP links to Rfam database...	0.61	0.66	0.58	19	5962	18	3	11	4	10
SRP_00136	Fungi_SRP links to Rfam database...	0.38	0.41	0.35	29	44170	65	12	42	11	42
SRP_00137	Bacteria_small_SRP links to Rfam database...	0.75	0.84	0.68	21	4155	10	4	6	0	4
SRP_00141	Bacteria_small_SRP links to Rfam database...	0.92	0.93	0.90	38	6286	4	1	3	0	3
SRP_00142	Archaea_SRP links to Rfam database...	0.71	0.70	0.73	65	45967	28	0	24	4	28
SRP_00143	Archaea_SRP links to Rfam database...	0.81	0.80	0.83	81	49672	22	0	17	5	20
SRP_00144	Archaea_SRP links to Rfam database...	0.66	0.65	0.67	61	46574	34	1	29	4	33
SRP_00146	Bacteria_small_SRP links to Rfam database...	0.92	0.92	0.92	33	5217	3	1	2	0	3
SRP_00148	Fungi_SRP links to Rfam database...	0.37	0.38	0.36	33	49994	67	10	49	8	54
SRP_00152	Plant_SRP links to Rfam database...	0.49	0.48	0.51	49	45657	49	11	36	2	54
SRP_00153	Plant_SRP links to Rfam database...	0.60	0.58	0.63	62	46872	38	6	31	1	45
SRP_00157	Fungi_SRP links to Rfam database...	0.23	0.25	0.22	18	44170	70	17	48	5	54
SRP_00158	Fungi_SRP links to Rfam database...	0.22	0.27	0.19	31	124086	136	53	81	2	84
SRP_00160	Fungi_SRP links to Rfam database...	0.36	0.35	0.36	46	86193	82	12	69	1	84
SRP_00175	Fungi_SRP links to Rfam database...	0.14	0.14	0.13	12	44460	83	9	70	4	72
SRP_00178	Plant_SRP links to Rfam database...	0.14	0.14	0.15	14	45660	79	4	75	0	88
SRP_00179	Plant_SRP links to Rfam database...	0.61	0.58	0.64	61	45960	38	4	31	3	44
SRP_00181	Plant_SRP links to Rfam database...	0.31	0.29	0.33	30	45966	60	5	55	0	72
SRP_00182	Plant_SRP links to Rfam database...	0.72	0.72	0.72	73	45954	32	9	20	3	28
SRP_00184	Plant_SRP links to Rfam database...	0.57	0.54	0.61	54	45967	40	2	33	5	46
SRP_00188	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	31050	75	8	67	0	79
SRP_00197	Archaea_SRP links to Rfam database...	0.15	0.15	0.16	15	49362	78	9	69	0	86
SRP_00198	Archaea_SRP links to Rfam database...	0.39	0.39	0.39	40	50938	63	4	58	1	63
SRP_00199	Archaea_SRP links to Rfam database...	0.70	0.70	0.70	73	50936	32	3	28	1	32
SRP_00200	Bacteria_small_SRP links to Rfam database...	0.90	0.92	0.89	33	6866	4	1	3	0	3
SRP_00201	Archaea_SRP links to Rfam database...	0.85	0.84	0.86	93	47787	17	5	10	2	18
SRP_00202	Archaea_SRP links to Rfam database...	0.85	0.84	0.87	98	54172	16	2	13	1	19
SRP_00203	Archaea_SRP links to Rfam database...	0.73	0.75	0.71	79	48717	40	3	29	8	26
SRP_00204	Archaea_SRP links to Rfam database...	0.71	0.71	0.71	72	49040	30	7	22	1	30
SRP_00206	Archaea_SRP links to Rfam database...	0.86	0.85	0.86	92	47788	16	5	10	1	16
SRP_00230	Fungi_SRP links to Rfam database...	0.59	0.58	0.60	52	39534	41	1	34	6	38
SRP_00231	Bacteria_small_SRP links to Rfam database...	0.90	0.91	0.89	31	5425	4	1	3	0	3
SRP_00239	Plant_SRP links to Rfam database...	0.03	0.03	0.03	3	50303	97	17	80	0	90
SRP_00240	Plant_SRP links to Rfam database...	0.42	0.41	0.42	42	48106	59	6	51	2	60
SRP_00241	Plant_SRP links to Rfam database...	0.54	0.57	0.51	47	45963	48	17	29	2	35
SRP_00252	Metazoa_SRP links to Rfam database...	0.27	0.28	0.26	25	49045	74	12	59	3	64
SRP_00253	Metazoa_SRP links to Rfam database...	0.34	0.37	0.32	33	49353	75	8	61	6	57
SRP_00254	Fungi_SRP links to Rfam database...	0.27	0.28	0.26	17	32319	55	12	37	6	44
SRP_00255	Archaea_SRP links to Rfam database...	0.63	0.65	0.61	61	47486	41	7	32	2	33
SRP_00257	Metazoa_SRP links to Rfam database...	0.81	0.79	0.83	85	50938	20	5	12	3	23
SRP_00260	Metazoa_SRP links to Rfam database...	0.73	0.73	0.74	73	47796	28	7	19	2	27
SRP_00265	Fungi_SRP links to Rfam database...	0.21	0.22	0.20	16	41247	74	9	56	9	57
SRP_00273	Bacteria_small_SRP links to Rfam database...	0.94	0.95	0.93	38	6745	4	1	2	1	2
SRP_00274	Bacteria_small_SRP links to Rfam database...	0.92	0.92	0.92	35	6865	3	1	2	0	3
SRP_00276	Archaea_SRP links to Rfam database...	0.85	0.84	0.86	92	50614	16	5	10	1	18
SRP_00278	Archaea_SRP links to Rfam database...	0.77	0.76	0.77	80	45952	26	5	19	2	25
SRP_00285	Bacteria_small_SRP links to Rfam database...	0.98	0.97	1.00	29	3712	0	0	0	0	1
SRP_00286	Fungi_SRP links to Rfam database...	0.65	0.64	0.65	112	136854	70	2	58	10	62
SRP_00287	Fungi_SRP links to Rfam database...	0.49	0.51	0.48	82	141606	97	12	78	7	80
SRP_00290	Fungi_SRP links to Rfam database...	0.64	0.66	0.61	89	100431	64	2	54	8	46
SRP_00292	Fungi_SRP links to Rfam database...	0.52	0.51	0.52	88	137382	87	5	75	7	85
SRP_00294	Fungi_SRP links to Rfam database...	0.41	0.41	0.41	69	129119	103	12	86	5	98
SRP_00301	Fungi_SRP links to Rfam database...	0.70	0.70	0.70	60	32554	31	2	24	5	26
SRP_00302	Fungi_SRP links to Rfam database...	0.29	0.28	0.29	23	41537	63	10	46	7	58
SRP_00308	Bacteria_large_SRP links to Rfam database...	0.67	0.67	0.67	59	36227	29	4	25	0	29
SRP_00322	Archaea_SRP links to Rfam database...	0.82	0.82	0.82	89	48407	20	3	17	0	20
SRP_00323	Archaea_SRP links to Rfam database...	0.94	0.93	0.95	100	47173	8	0	5	3	7
SRP_00328	Metazoa_SRP links to Rfam database...	0.55	0.55	0.55	47	39536	41	8	30	3	38
SRP_00329	Metazoa_SRP links to Rfam database...	0.25	0.25	0.25	21	39818	65	10	54	1	64
SRP_00330	Archaea_SRP links to Rfam database...	0.36	0.37	0.36	35	49989	64	4	58	2	60
SRP_00331	Metazoa_SRP links to Rfam database...	0.41	0.41	0.42	36	37589	51	7	43	1	51
SRP_00332	Archaea_SRP links to Rfam database...	0.89	0.88	0.90	93	50300	14	1	9	4	13
SRP_00338	Bacteria_small_SRP links to Rfam database...	0.96	0.94	0.97	34	5425	1	0	1	0	2
SRP_00339	Archaea_SRP links to Rfam database...	0.58	0.61	0.56	57	44449	46	5	40	1	37
SRP_00340	Metazoa_SRP links to Rfam database...	0.48	0.50	0.47	41	41240	50	8	39	3	41
SRP_00341	Bacteria_small_SRP links to Rfam database...	0.39	0.39	0.40	12	4723	18	0	18	0	19
SRP_00357	Bacteria_small_SRP links to Rfam database...	0.93	0.94	0.92	34	5319	3	1	2	0	2
SRP_00361	Plant_SRP links to Rfam database...	0.49	0.50	0.48	45	41811	55	9	40	6	45
SRP_00367	Bacteria_small_SRP links to Rfam database...	0.80	0.83	0.78	29	6749	8	1	7	0	6
SRP_00371	Fungi_SRP links to Rfam database...	0.70	0.70	0.70	57	36234	30	2	22	6	25
SRP_00382	Fungi_SRP links to Rfam database...	0.59	0.58	0.60	99	141614	77	5	60	12	71

^top

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

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

Total Base Pair Counts
Total TP	897
Total TN	9110291
Total FP	279
Total FP CONTRA	18
Total FP INCONS	140
Total FP COMP	121
Total FN	15511

Total Scores
MCC	0.215
Average MCC ± 95% Confidence Intervals	0.179 ± 0.038
Sensitivity	0.055
Positive Predictive Value	0.850
Nr of predictions	268

^top

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

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
ASE_00001	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	34191	0	0	0	0	75
ASE_00002	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	35511	0	0	0	0	73
ASE_00009	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	26106	0	0	0	0	67
ASE_00014	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	54285	0	0	0	0	106
ASE_00116	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	31626	0	0	0	0	66
ASE_00120	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	46971	0	0	0	0	94
ASE_00121	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	45150	0	0	0	0	92
ASE_00145	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	70125	0	0	0	0	111
ASE_00148	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	112575	0	0	0	0	154
ASE_00154	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	65341	0	0	0	0	107
ASE_00155	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	93528	0	0	0	0	142
ASE_00187	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	68635	0	0	0	0	115
ASE_00191	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	29646	0	0	0	0	61
ASE_00196	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	31626	0	0	0	0	75
ASE_00205	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	46056	0	0	0	0	90
ASE_00209	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	43071	0	0	0	0	88
ASE_00210	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	27261	0	0	0	0	65
ASE_00213	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	27261	0	0	0	0	66
ASE_00222	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	112101	0	0	0	0	157
ASE_00346	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	48205	0	0	0	0	97
ASE_00359	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	42778	0	0	0	0	80
ASE_00360	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	29403	0	0	0	0	65
ASE_00417	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	54615	0	0	0	0	100
ASE_00418	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	38781	0	0	0	0	75
CRW_00013	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	103740	0	0	0	0	115
CRW_00016	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	77421	0	0	0	0	120
CRW_00610	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	36315	0	0	0	0	81
CRW_00613	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	34980	0	0	0	0	78
CRW_00614	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	121771	0	0	0	0	57
CRW_00618	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	56280	0	0	0	0	61
CRW_00619	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	165025	0	0	0	0	73
CRW_00620	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	150975	0	0	0	0	63
CRW_00621	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	153181	0	0	0	0	71
CRW_00623	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	129795	0	0	0	0	83
CRW_00633	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	63546	0	0	0	0	106
CRW_00634	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	64620	0	0	0	0	94
CRW_00670	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	70125	0	0	0	0	120
CRW_00671	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	62835	0	0	0	0	117
CRW_00672	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	72390	0	0	0	0	111
CRW_00674	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	83436	0	0	0	0	124
CRW_00676	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	93528	0	0	0	0	115
CRW_00692	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	68635	0	0	0	0	90
CRW_01484	5S_rRNA links to Rfam database...	0.00	0.00	0.00	0	7503	0	0	0	0	39
CRW_01499	5S_rRNA links to Rfam database...	0.00	0.00	0.00	0	8001	0	0	0	0	41
CRW_01603	5S_rRNA links to Rfam database...	0.00	0.00	0.00	0	7140	0	0	0	0	37
PDB_00005	Tymo_tRNA-like links to Rfam database...	0.88	0.79	1.00	11	935	0	0	0	0	3
PDB_00012	mir-TAR links to Rfam database...	1.00	1.00	1.00	7	399	3	0	0	3	0
PDB_00213	Gammaretro_CES links to Rfam database...	0.58	0.34	1.00	14	5036	0	0	0	0	27
PDB_00553	mir-TAR links to Rfam database...	0.79	0.64	1.00	7	458	0	0	0	0	4
PDB_00716	HDV_ribozyme links to Rfam database...	0.00	0.00	0.00	0	2701	0	0	0	0	23
PDB_00810	s2m links to Rfam database...	0.64	0.41	1.00	7	1074	0	0	0	0	10
PDB_00827	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	27028	0	0	0	0	81
PDB_01001	tRNA links to Rfam database...	0.00	0.00	0.00	0	2145	0	0	0	0	18
PDB_01050	UnaL2 links to Rfam database...	0.62	0.38	1.00	5	625	1	0	0	1	8
PDB_01051	Telomerase-cil links to Rfam database...	0.00	0.00	0.00	0	903	0	0	0	0	13
PDB_01092	glmS links to Rfam database...	0.77	0.63	0.94	33	10118	3	1	1	1	19
PDB_01152	HIV_FS2 links to Rfam database...	0.88	0.79	1.00	11	550	0	0	0	0	3
RFA_00389	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	2	0	0	2	0
RFA_00390	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	2	0	0	2	0
RFA_00391	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1418	2	0	0	2	2
RFA_00409	Hammerhead_3 links to Rfam database...	0.77	0.60	1.00	9	1422	1	0	0	1	6
RFA_00416	Hammerhead_3 links to Rfam database...	0.93	0.93	0.93	14	1470	4	0	1	3	1
RFA_00433	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	2	0	0	2	0
RFA_00434	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	2	0	0	2	0
RFA_00436	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	2	0	0	2	0
RFA_00440	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1470	2	0	0	2	0
RFA_00442	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	2	0	0	2	0
RFA_00446	Hammerhead_3 links to Rfam database...	0.97	0.93	1.00	14	1471	2	0	0	2	1
RFA_00449	Hammerhead_3 links to Rfam database...	0.97	0.93	1.00	14	1471	2	0	0	2	1
RFA_00587	Y_RNA links to Rfam database...	0.00	0.00	0.00	0	4851	0	0	0	0	15
RFA_00597	Telomerase-vert links to Rfam database...	0.00	0.00	0.00	0	97903	0	0	0	0	109
RFA_00598	Telomerase-vert links to Rfam database...	0.00	0.00	0.00	0	84666	0	0	0	0	101
RFA_00599	Telomerase-vert links to Rfam database...	0.00	0.00	0.00	0	101475	0	0	0	0	111
RFA_00600	Telomerase-vert links to Rfam database...	0.00	0.00	0.00	0	120295	0	0	0	0	100
RFA_00601	Telomerase-vert links to Rfam database...	0.00	0.00	0.00	0	99235	0	0	0	0	114
RFA_00602	Telomerase-vert links to Rfam database...	0.00	0.00	0.00	0	101475	0	0	0	0	116
RFA_00603	Telomerase-cil links to Rfam database...	0.56	0.31	1.00	11	13519	2	0	0	2	24
RFA_00604	Telomerase-cil links to Rfam database...	0.56	0.31	1.00	11	13519	6	0	0	6	24
RFA_00605	Telomerase-cil links to Rfam database...	0.41	0.17	1.00	6	15219	2	0	0	2	29
RFA_00606	Telomerase-cil links to Rfam database...	0.17	0.08	0.38	3	21313	6	1	4	1	36
RFA_00607	Telomerase-cil links to Rfam database...	0.25	0.08	0.75	3	17762	10	0	1	9	33
RFA_00609	Telomerase-cil links to Rfam database...	0.27	0.14	0.56	5	17946	10	2	2	6	32
RFA_00610	Telomerase-cil links to Rfam database...	0.37	0.14	1.00	5	17200	5	0	0	5	32
RFA_00611	Telomerase-cil links to Rfam database...	0.38	0.14	1.00	5	13036	0	0	0	0	30
RFA_00613	Telomerase-cil links to Rfam database...	0.24	0.14	0.42	5	12868	7	4	3	0	30
RFA_00615	Telomerase-cil links to Rfam database...	0.48	0.23	1.00	8	13358	1	0	0	1	27
RFA_00620	Telomerase-cil links to Rfam database...	0.13	0.08	0.23	3	21932	11	2	8	1	36
RFA_00621	RNase_MRP links to Rfam database...	0.00	0.00	0.00	0	46360	0	0	0	0	76
RFA_00623	RNase_MRP links to Rfam database...	0.00	0.00	0.00	0	43956	0	0	0	0	78
RFA_00624	RNase_MRP links to Rfam database...	0.00	0.00	0.00	0	30135	0	0	0	0	61
RFA_00626	rne5 links to Rfam database...	0.67	0.52	0.87	45	56564	11	0	7	4	42
RFA_00627	rne5 links to Rfam database...	0.69	0.55	0.86	48	56897	10	0	8	2	39
RFA_00628	rne5 links to Rfam database...	0.66	0.43	1.00	37	57254	6	0	0	6	49
RFA_00630	rne5 links to Rfam database...	0.79	0.67	0.94	58	56891	12	0	4	8	29
RFA_00632	HDV_ribozyme links to Rfam database...	0.00	0.00	0.00	0	4095	0	0	0	0	28
RFA_00636	HDV_ribozyme links to Rfam database...	0.00	0.00	0.00	0	4005	0	0	0	0	28
RFA_00639	7SK links to Rfam database...	0.00	0.00	0.00	0	54608	7	0	7	0	87
RFA_00642	Vimentin3 links to Rfam database...	0.00	0.00	0.00	0	2926	0	0	0	0	18
RFA_00643	Vimentin3 links to Rfam database...	0.00	0.00	0.00	0	2211	0	0	0	0	18
RFA_00644	Vimentin3 links to Rfam database...	0.00	0.00	0.00	0	2701	0	0	0	0	18
RFA_00645	Vimentin3 links to Rfam database...	0.00	0.00	0.00	0	2415	0	0	0	0	18
RFA_00649	Vimentin3 links to Rfam database...	0.00	0.00	0.00	0	2145	0	0	0	0	18
RFA_00651	Vimentin3 links to Rfam database...	0.00	0.00	0.00	0	2080	0	0	0	0	18
RFA_00653	Vimentin3 links to Rfam database...	0.00	0.00	0.00	0	2145	0	0	0	0	18
RFA_00654	Vimentin3 links to Rfam database...	0.00	0.00	0.00	0	2415	0	0	0	0	18
RFA_00658	Hammerhead_1 links to Rfam database...	0.40	0.29	0.57	4	1121	5	0	3	2	10
RFA_00659	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	1124	4	0	4	0	14
RFA_00664	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	990	0	0	0	0	14
RFA_00667	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	985	5	1	4	0	14
RFA_00668	Hammerhead_1 links to Rfam database...	0.50	0.43	0.60	6	980	4	0	4	0	8
RFA_00672	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	903	0	0	0	0	13
RFA_00673	Hammerhead_1 links to Rfam database...	0.47	0.36	0.63	5	1120	4	0	3	1	9
RFA_00674	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	1128	0	0	0	0	14
RFA_00675	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	990	0	0	0	0	14
RFA_00677	Hammerhead_1 links to Rfam database...	0.53	0.43	0.67	6	981	4	0	3	1	8
RFA_00678	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	946	0	0	0	0	14
RFA_00680	Hammerhead_1 links to Rfam database...	0.84	0.71	1.00	10	1118	2	0	0	2	4
RFA_00684	Hammerhead_1 links to Rfam database...	0.84	0.71	1.00	10	980	1	0	0	1	4
RFA_00685	Hammerhead_1 links to Rfam database...	0.59	0.36	1.00	5	985	0	0	0	0	9
RFA_00695	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	7021	0	0	0	0	14
RFA_00703	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	4278	0	0	0	0	14
RFA_00704	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	990	0	0	0	0	14
RFA_00705	Hammerhead_1 links to Rfam database...	0.84	0.71	1.00	10	1025	0	0	0	0	4
RFA_00706	Hammerhead_1 links to Rfam database...	0.53	0.29	1.00	4	1031	0	0	0	0	10
RFA_00707	Hammerhead_1 links to Rfam database...	0.53	0.29	1.00	4	1031	0	0	0	0	10
RFA_00708	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	1035	0	0	0	0	14
RFA_00709	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	984	7	0	6	1	14
RFA_00710	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	987	3	0	3	0	14
RFA_00711	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	1031	4	0	4	0	14
RFA_00715	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	943	3	1	2	0	14
RFA_00716	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	946	0	0	0	0	14
RFA_00717	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	903	0	0	0	0	14
RFA_00730	s2m links to Rfam database...	0.64	0.42	1.00	5	898	1	0	0	1	7
RFA_00731	s2m links to Rfam database...	0.64	0.42	1.00	5	898	1	0	0	1	7
RFA_00733	s2m links to Rfam database...	0.64	0.42	1.00	5	898	1	0	0	1	7
RFA_00734	s2m links to Rfam database...	0.64	0.42	1.00	5	898	0	0	0	0	7
RFA_00736	s2m links to Rfam database...	0.64	0.42	1.00	5	898	1	0	0	1	7
RFA_00737	s2m links to Rfam database...	0.64	0.42	1.00	5	898	1	0	0	1	7
RFA_00745	s2m links to Rfam database...	0.64	0.42	1.00	5	941	1	0	0	1	7
RFA_00749	s2m links to Rfam database...	0.64	0.42	1.00	5	898	1	0	0	1	7
RFA_00758	s2m links to Rfam database...	0.00	0.00	0.00	0	903	0	0	0	0	12
RFA_00762	s2m links to Rfam database...	0.64	0.42	1.00	5	898	0	0	0	0	7
RFA_00763	s2m links to Rfam database...	0.64	0.42	1.00	5	898	1	0	0	1	7
RFA_00764	s2m links to Rfam database...	0.64	0.42	1.00	5	898	1	0	0	1	7
RFA_00765	s2m links to Rfam database...	0.64	0.42	1.00	5	898	1	0	0	1	7
RFA_00767	Corona_pk3 links to Rfam database...	0.74	0.56	1.00	10	1881	0	0	0	0	8
RFA_00768	Corona_pk3 links to Rfam database...	0.74	0.56	1.00	10	1881	0	0	0	0	8
RFA_00769	Corona_pk3 links to Rfam database...	0.71	0.56	0.91	10	1942	1	1	0	0	8
RFA_00770	Corona_pk3 links to Rfam database...	0.62	0.39	1.00	7	2009	0	0	0	0	11
RFA_00773	Corona_pk3 links to Rfam database...	0.71	0.56	0.91	10	1942	1	1	0	0	8
RFA_00779	Corona_pk3 links to Rfam database...	0.74	0.56	1.00	10	1943	0	0	0	0	8
RFA_00781	Gammaretro_CES links to Rfam database...	0.25	0.13	0.50	4	5042	4	1	3	0	28
RFA_00786	Gammaretro_CES links to Rfam database...	0.25	0.13	0.50	4	5042	4	1	3	0	28
RFA_00791	Gammaretro_CES links to Rfam database...	0.00	0.00	0.00	0	5151	0	0	0	0	32
RFA_00792	Gammaretro_CES links to Rfam database...	0.00	0.00	0.00	0	5046	4	1	3	0	32
RFA_00801	Gammaretro_CES links to Rfam database...	0.00	0.00	0.00	0	5050	0	0	0	0	32
RFA_00805	RNAIII links to Rfam database...	0.09	0.04	0.21	6	133357	23	0	23	0	144
RFA_00808	RydC links to Rfam database...	0.00	0.00	0.00	0	2016	0	0	0	0	16
RFA_00809	RydC links to Rfam database...	0.00	0.00	0.00	0	2145	0	0	0	0	16
RFA_00814	R2_retro_el links to Rfam database...	0.66	0.44	1.00	18	25182	2	0	0	2	23
RFA_00815	R2_retro_el links to Rfam database...	0.75	0.56	1.00	23	24508	1	0	0	1	18
RFA_00816	R2_retro_el links to Rfam database...	0.66	0.44	1.00	18	23202	2	0	0	2	23
RFA_00817	R2_retro_el links to Rfam database...	0.80	0.66	0.96	27	21917	1	0	1	0	14
RFA_00818	R2_retro_el links to Rfam database...	0.70	0.49	1.00	20	20281	3	0	0	3	21
RFA_00819	R2_retro_el links to Rfam database...	0.75	0.56	1.00	23	27943	2	0	0	2	18
RFA_00820	bicoid_3 links to Rfam database...	0.39	0.19	0.78	31	151485	12	0	9	3	129
RFA_00830	bicoid_3 links to Rfam database...	0.31	0.16	0.60	25	152586	25	1	16	8	129
SPR_00020	tRNA links to Rfam database...	0.00	0.00	0.00	0	2701	0	0	0	0	20
SPR_00137	tRNA links to Rfam database...	0.00	0.00	0.00	0	2926	0	0	0	0	21
SPR_00273	tRNA links to Rfam database...	0.00	0.00	0.00	0	2850	0	0	0	0	21
SPR_00394	tRNA links to Rfam database...	0.00	0.00	0.00	0	3655	0	0	0	0	21
SPR_00402	tRNA links to Rfam database...	0.00	0.00	0.00	0	2556	0	0	0	0	21
SPR_00721	tRNA links to Rfam database...	0.00	0.00	0.00	0	2926	0	0	0	0	21
SPR_00816	tRNA links to Rfam database...	0.00	0.00	0.00	0	3486	0	0	0	0	20
SRP_00009	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	46665	0	0	0	0	102
SRP_00011	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	46360	0	0	0	0	104
SRP_00012	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	46360	0	0	0	0	101
SRP_00015	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	46360	0	0	0	0	99
SRP_00016	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	47895	0	0	0	0	109
SRP_00018	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	38503	0	0	0	0	81
SRP_00019	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	36046	0	0	0	0	91
SRP_00020	Bacteria_small_SRP links to Rfam database...	0.00	0.00	0.00	0	5565	0	0	0	0	33
SRP_00058	Bacteria_small_SRP links to Rfam database...	0.00	0.00	0.00	0	5778	0	0	0	0	34
SRP_00069	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	34453	0	0	0	0	85
SRP_00070	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	126756	0	0	0	0	121
SRP_00073	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	39060	0	0	0	0	71
SRP_00079	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	41905	0	0	0	0	88
SRP_00084	Bacteria_small_SRP links to Rfam database...	0.00	0.00	0.00	0	5460	0	0	0	0	34
SRP_00085	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	45451	0	0	0	0	101
SRP_00087	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	37401	0	0	0	0	58
SRP_00091	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	52975	0	0	0	0	95
SRP_00099	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	44850	0	0	0	0	95
SRP_00104	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	34453	0	0	0	0	69
SRP_00105	Bacteria_small_SRP links to Rfam database...	0.00	0.00	0.00	0	5565	0	0	0	0	34
SRP_00124	Metazoa_SRP links to Rfam database...	0.00	0.00	0.00	0	37128	0	0	0	0	85
SRP_00127	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	72390	0	0	0	0	119
SRP_00130	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	49770	0	0	0	0	97
SRP_00134	Bacteria_large_SRP links to Rfam database...	0.00	0.00	0.00	0	5995	0	0	0	0	29
SRP_00136	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	44253	0	0	0	0	71
SRP_00137	Bacteria_small_SRP links to Rfam database...	0.00	0.00	0.00	0	4186	0	0	0	0	25
SRP_00141	Bacteria_small_SRP links to Rfam database...	0.00	0.00	0.00	0	6328	0	0	0	0	41
SRP_00142	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	46056	0	0	0	0	93
SRP_00143	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	49770	0	0	0	0	101
SRP_00144	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	46665	0	0	0	0	94
SRP_00146	Bacteria_small_SRP links to Rfam database...	0.00	0.00	0.00	0	5253	0	0	0	0	36
SRP_00148	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	50086	0	0	0	0	87
SRP_00152	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	45753	0	0	0	0	103
SRP_00153	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	46971	0	0	0	0	107
SRP_00157	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	44253	0	0	0	0	72
SRP_00158	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	124251	0	0	0	0	115
SRP_00160	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	86320	0	0	0	0	130
SRP_00175	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	44551	0	0	0	0	84
SRP_00178	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	45753	0	0	0	0	102
SRP_00179	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	46056	0	0	0	0	105
SRP_00181	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	46056	0	0	0	0	102
SRP_00182	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	46056	0	0	0	0	101
SRP_00184	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	46056	0	0	0	0	100
SRP_00188	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	31125	0	0	0	0	79
SRP_00197	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	49455	0	0	0	0	101
SRP_00198	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	51040	0	0	0	0	103
SRP_00199	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	51040	0	0	0	0	105
SRP_00200	Bacteria_small_SRP links to Rfam database...	0.00	0.00	0.00	0	6903	0	0	0	0	36
SRP_00201	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	47895	0	0	0	0	111
SRP_00202	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	54285	0	0	0	0	117
SRP_00203	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	48828	0	0	0	0	105
SRP_00204	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	49141	0	0	0	0	102
SRP_00206	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	47895	0	0	0	0	108
SRP_00230	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	39621	0	0	0	0	90
SRP_00231	Bacteria_small_SRP links to Rfam database...	0.00	0.00	0.00	0	5460	0	0	0	0	34
SRP_00239	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	50403	0	0	0	0	93
SRP_00240	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	48205	0	0	0	0	102
SRP_00241	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	46056	0	0	0	0	82
SRP_00252	Metazoa_SRP links to Rfam database...	0.00	0.00	0.00	0	49141	0	0	0	0	89
SRP_00253	Metazoa_SRP links to Rfam database...	0.00	0.00	0.00	0	49455	0	0	0	0	90
SRP_00254	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	32385	0	0	0	0	61
SRP_00255	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	47586	0	0	0	0	94
SRP_00257	Metazoa_SRP links to Rfam database...	0.00	0.00	0.00	0	51040	0	0	0	0	108
SRP_00260	Metazoa_SRP links to Rfam database...	0.00	0.00	0.00	0	47895	0	0	0	0	100
SRP_00265	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	41328	0	0	0	0	73
SRP_00273	Bacteria_small_SRP links to Rfam database...	0.00	0.00	0.00	0	6786	0	0	0	0	40
SRP_00274	Bacteria_small_SRP links to Rfam database...	0.00	0.00	0.00	0	6903	0	0	0	0	38
SRP_00276	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	50721	0	0	0	0	110
SRP_00278	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	46056	0	0	0	0	105
SRP_00285	Bacteria_small_SRP links to Rfam database...	0.00	0.00	0.00	0	3741	0	0	0	0	30
SRP_00286	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	137026	0	0	0	0	174
SRP_00287	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	141778	0	0	0	0	162
SRP_00290	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	100576	0	0	0	0	135
SRP_00292	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	137550	0	0	0	0	173
SRP_00294	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	129286	0	0	0	0	167
SRP_00301	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	32640	0	0	0	0	86
SRP_00302	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	41616	0	0	0	0	81
SRP_00308	Bacteria_large_SRP links to Rfam database...	0.00	0.00	0.00	0	36315	0	0	0	0	88
SRP_00322	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	48516	0	0	0	0	109
SRP_00323	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	47278	0	0	0	0	107
SRP_00328	Metazoa_SRP links to Rfam database...	0.00	0.00	0.00	0	39621	0	0	0	0	85
SRP_00329	Metazoa_SRP links to Rfam database...	0.00	0.00	0.00	0	39903	0	0	0	0	85
SRP_00330	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	50086	0	0	0	0	95
SRP_00331	Metazoa_SRP links to Rfam database...	0.00	0.00	0.00	0	37675	0	0	0	0	87
SRP_00332	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	50403	0	0	0	0	106
SRP_00338	Bacteria_small_SRP links to Rfam database...	0.00	0.00	0.00	0	5460	0	0	0	0	36
SRP_00339	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	44551	0	0	0	0	94
SRP_00340	Metazoa_SRP links to Rfam database...	0.00	0.00	0.00	0	41328	0	0	0	0	82
SRP_00341	Bacteria_small_SRP links to Rfam database...	0.00	0.00	0.00	0	4753	0	0	0	0	31
SRP_00357	Bacteria_small_SRP links to Rfam database...	0.00	0.00	0.00	0	5356	0	0	0	0	36
SRP_00361	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	41905	0	0	0	0	90
SRP_00367	Bacteria_small_SRP links to Rfam database...	0.00	0.00	0.00	0	6786	0	0	0	0	35
SRP_00371	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	36315	0	0	0	0	82
SRP_00382	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	141778	0	0	0	0	170

^top

Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based on the paper by Gardener & Giegerich, 2004.

Table of contents:

Overview

Performance plots

Performance of CRWrnafold - scored higher in this pairwise comparison

1. Total counts & total scores for CRWrnafold

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

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

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

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