CompaRNA - on-line benchmarks of RNA structure prediction methods

Laboratory of Structural Bioinformatics @ Adam Mickiewicz University in Poznan

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Overview

Metric	Vsfold5		Carnac(seed)
MCC	0.237	>	0.234
Average MCC ± 95% Confidence Intervals	0.293 ± 0.034	>	0.193 ± 0.041
Sensitivity	0.225	>	0.062
Positive Predictive Value	0.252	<	0.885
Total TP	3018	>	835
Total TN	6053296	<	6064316
Total FP	9406	>	219
Total FP CONTRA	1213	>	17
Total FP INCONS	7733	>	92
Total FP COMP	460	>	110
Total FN	10386	<	12569
P-value	0.0155447020429

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Performance plots

Comparison of performance of Vsfold5 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 Vsfold5 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 Vsfold5 and Carnac(seed)).
Comparison of average Matthews Correlation Coefficients (MCCs) for Vsfold5 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 Vsfold5 and Carnac(seed)).

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Performance of Vsfold5 - scored higher in this pairwise comparison

1. Total counts & total scores for Vsfold5

Total Base Pair Counts
Total TP	3018
Total TN	6053296
Total FP	9406
Total FP CONTRA	1213
Total FP INCONS	7733
Total FP COMP	460
Total FN	10386

Total Scores
MCC	0.237
Average MCC ± 95% Confidence Intervals	0.293 ± 0.034
Sensitivity	0.225
Positive Predictive Value	0.252
Nr of predictions	244

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2. Individual counts for Vsfold5 [ 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...	0.40	0.37	0.44	28	34127	39	6	30	3	47
ASE_00002	RNaseP_arch links to Rfam database...	0.48	0.42	0.53	31	35453	31	4	23	4	42
ASE_00009	RNaseP_arch links to Rfam database...	0.20	0.19	0.20	13	26042	52	0	51	1	54
ASE_00014	RNaseP_arch links to Rfam database...	0.44	0.44	0.45	47	54180	59	8	50	1	59
ASE_00116	RNaseP_arch links to Rfam database...	0.16	0.15	0.17	10	31566	51	5	45	1	56
ASE_00120	RNaseP_arch links to Rfam database...	0.20	0.19	0.21	18	46885	68	5	63	0	76
ASE_00121	RNaseP_arch links to Rfam database...	0.13	0.13	0.14	12	45065	75	9	64	2	80
ASE_00145	RNaseP_arch links to Rfam database...	0.31	0.29	0.33	32	70027	67	6	60	1	79
ASE_00154	RNaseP_arch links to Rfam database...	0.19	0.18	0.22	19	65253	70	4	65	1	88
ASE_00155	RNaseP_arch links to Rfam database...	0.31	0.30	0.34	42	93403	86	7	76	3	100
ASE_00187	RNaseP_arch links to Rfam database...	0.30	0.30	0.30	34	68523	78	11	67	0	81
ASE_00191	RNaseP_arch links to Rfam database...	0.18	0.18	0.17	11	29583	53	8	44	1	50
ASE_00196	RNaseP_arch links to Rfam database...	0.30	0.28	0.32	21	31561	48	4	40	4	54
ASE_00205	RNaseP_arch links to Rfam database...	0.24	0.24	0.25	22	45967	68	10	57	1	68
ASE_00209	RNaseP_arch links to Rfam database...	0.16	0.15	0.17	13	42993	65	5	60	0	75
ASE_00210	RNaseP_arch links to Rfam database...	0.20	0.20	0.20	13	27197	53	8	43	2	52
ASE_00213	RNaseP_arch links to Rfam database...	0.22	0.21	0.23	14	27200	49	10	37	2	52
ASE_00346	RNaseP_arch links to Rfam database...	0.22	0.21	0.24	20	48120	66	3	62	1	77
ASE_00359	RNaseP_arch links to Rfam database...	0.18	0.19	0.18	15	42695	69	10	58	1	65
ASE_00360	RNaseP_arch links to Rfam database...	0.22	0.22	0.23	14	29343	46	10	36	0	51
ASE_00417	RNaseP_arch links to Rfam database...	0.37	0.37	0.37	37	54514	65	13	51	1	63
ASE_00418	RNaseP_arch links to Rfam database...	0.22	0.21	0.23	16	38712	58	1	52	5	59
CRW_00016	Intron_gpI links to Rfam database...	0.40	0.38	0.42	45	77315	67	4	57	6	75
CRW_00610	Intron_gpI links to Rfam database...	0.29	0.28	0.30	23	36238	57	6	48	3	58
CRW_00613	Intron_gpI links to Rfam database...	0.48	0.46	0.51	36	34909	41	2	33	6	42
CRW_00618	Intron_gpI links to Rfam database...	0.24	0.26	0.23	16	56210	76	9	45	22	45
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...	0.32	0.33	0.32	31	64523	75	10	56	9	63
CRW_00670	Intron_gpI links to Rfam database...	0.40	0.38	0.43	45	70020	61	3	57	1	75
CRW_00671	Intron_gpI links to Rfam database...	0.29	0.26	0.33	31	62740	64	2	62	0	86
CRW_00672	Intron_gpI links to Rfam database...	0.39	0.40	0.39	44	72278	70	14	54	2	67
CRW_00674	Intron_gpI links to Rfam database...	0.33	0.31	0.36	38	83330	74	5	63	6	86
CRW_00676	Intron_gpI links to Rfam database...	0.34	0.36	0.33	41	93405	88	19	63	6	74
CRW_00692	Intron_gpI links to Rfam database...	0.36	0.38	0.34	34	68534	67	21	46	0	56
CRW_01484	5S_rRNA links to Rfam database...	0.44	0.38	0.52	15	7474	14	0	14	0	24
CRW_01499	5S_rRNA links to Rfam database...	0.16	0.15	0.18	6	7967	28	0	28	0	35
CRW_01603	5S_rRNA links to Rfam database...	0.11	0.11	0.13	4	7108	28	2	26	0	33
PDB_00005	Tymo_tRNA-like links to Rfam database...	0.78	0.79	0.79	11	932	3	1	2	0	3
PDB_00012	mir-TAR links to Rfam database...	1.00	1.00	1.00	7	399	2	0	0	2	0
PDB_00213	Gammaretro_CES links to Rfam database...	0.40	0.37	0.45	15	5017	18	0	18	0	26
PDB_00553	mir-TAR links to Rfam database...	0.95	0.91	1.00	10	455	0	0	0	0	1
PDB_00716	HDV_ribozyme links to Rfam database...	0.17	0.17	0.18	4	2679	19	0	18	1	19
PDB_00810	s2m links to Rfam database...	0.45	0.35	0.60	6	1071	4	2	2	0	11
PDB_00827	Intron_gpI links to Rfam database...	0.51	0.42	0.62	34	26973	22	0	21	1	47
PDB_01001	tRNA links to Rfam database...	-0.01	0.00	0.00	0	2130	15	3	12	0	18
PDB_01050	UnaL2 links to Rfam database...	0.92	0.85	1.00	11	619	2	0	0	2	2
PDB_01051	Telomerase-cil links to Rfam database...	0.36	0.38	0.36	5	889	9	2	7	0	8
PDB_01092	glmS links to Rfam database...	0.73	0.69	0.77	36	10106	12	2	9	1	16
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...	0.97	0.93	1.00	14	1417	2	0	0	2	1
RFA_00390	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1418	2	0	0	2	2
RFA_00391	Hammerhead_3 links to Rfam database...	0.69	0.67	0.71	10	1417	6	3	1	2	5
RFA_00409	Hammerhead_3 links to Rfam database...	0.89	0.80	1.00	12	1419	1	0	0	1	3
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...	0.97	0.93	1.00	14	1417	2	0	0	2	1
RFA_00434	Hammerhead_3 links to Rfam database...	0.97	0.93	1.00	14	1417	2	0	0	2	1
RFA_00436	Hammerhead_3 links to Rfam database...	0.97	0.93	1.00	14	1417	2	0	0	2	1
RFA_00440	Hammerhead_3 links to Rfam database...	0.97	0.93	1.00	14	1471	2	0	0	2	1
RFA_00442	Hammerhead_3 links to Rfam database...	0.97	0.93	1.00	14	1417	2	0	0	2	1
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...	0.49	0.53	0.44	8	4833	21	4	6	11	7
RFA_00598	Telomerase-vert links to Rfam database...	0.07	0.07	0.06	7	84557	111	20	82	9	94
RFA_00603	Telomerase-cil links to Rfam database...	0.39	0.37	0.41	13	13498	26	5	14	7	22
RFA_00604	Telomerase-cil links to Rfam database...	0.48	0.49	0.49	17	13495	24	8	10	6	18
RFA_00605	Telomerase-cil links to Rfam database...	0.09	0.09	0.09	3	15192	40	2	28	10	32
RFA_00606	Telomerase-cil links to Rfam database...	0.41	0.49	0.35	19	21267	43	15	20	8	20
RFA_00607	Telomerase-cil links to Rfam database...	0.45	0.47	0.43	17	17726	30	8	15	7	19
RFA_00609	Telomerase-cil links to Rfam database...	0.54	0.57	0.53	21	17915	28	4	15	9	16
RFA_00610	Telomerase-cil links to Rfam database...	0.64	0.65	0.63	24	17167	23	2	12	9	13
RFA_00611	Telomerase-cil links to Rfam database...	0.57	0.54	0.59	19	13009	16	1	12	3	16
RFA_00613	Telomerase-cil links to Rfam database...	0.39	0.37	0.41	13	12848	22	6	13	3	22
RFA_00615	Telomerase-cil links to Rfam database...	0.50	0.49	0.52	17	13333	19	4	12	3	18
RFA_00620	Telomerase-cil links to Rfam database...	0.23	0.23	0.24	9	21907	41	6	23	12	30
RFA_00621	RNase_MRP links to Rfam database...	0.13	0.13	0.14	10	46288	73	5	57	11	66
RFA_00623	RNase_MRP links to Rfam database...	0.38	0.37	0.39	29	43881	53	2	44	7	49
RFA_00624	RNase_MRP links to Rfam database...	0.14	0.13	0.15	8	30082	48	5	40	3	53
RFA_00626	rne5 links to Rfam database...	0.31	0.31	0.32	27	56531	62	15	43	4	60
RFA_00627	rne5 links to Rfam database...	0.26	0.26	0.26	23	56863	69	16	51	2	64
RFA_00628	rne5 links to Rfam database...	0.34	0.35	0.34	30	57202	66	13	46	7	56
RFA_00630	rne5 links to Rfam database...	0.27	0.29	0.26	25	56857	78	13	58	7	62
RFA_00632	HDV_ribozyme links to Rfam database...	-0.01	0.00	0.00	0	4073	22	0	22	0	28
RFA_00636	HDV_ribozyme links to Rfam database...	0.58	0.57	0.59	16	3978	11	1	10	0	12
RFA_00639	7SK links to Rfam database...	0.06	0.06	0.06	5	54526	88	15	69	4	82
RFA_00642	Vimentin3 links to Rfam database...	-0.01	0.00	0.00	0	2914	12	1	11	0	18
RFA_00643	Vimentin3 links to Rfam database...	0.38	0.39	0.39	7	2193	11	5	6	0	11
RFA_00644	Vimentin3 links to Rfam database...	0.22	0.22	0.22	4	2683	14	1	13	0	14
RFA_00645	Vimentin3 links to Rfam database...	-0.01	0.00	0.00	0	2400	15	0	15	0	18
RFA_00649	Vimentin3 links to Rfam database...	-0.01	0.00	0.00	0	2130	15	1	14	0	18
RFA_00651	Vimentin3 links to Rfam database...	0.47	0.44	0.50	8	2064	8	1	7	0	10
RFA_00653	Vimentin3 links to Rfam database...	-0.01	0.00	0.00	0	2131	14	3	11	0	18
RFA_00654	Vimentin3 links to Rfam database...	0.54	0.44	0.67	8	2403	5	1	3	1	10
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	1125	5	0	3	2	14
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...	0.21	0.21	0.23	3	977	10	3	7	0	11
RFA_00668	Hammerhead_1 links to Rfam database...	0.40	0.36	0.45	5	979	6	0	6	0	9
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...	0.40	0.29	0.57	4	1121	4	0	3	1	10
RFA_00674	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	1117	11	0	11	0	14
RFA_00675	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	981	9	1	8	0	14
RFA_00677	Hammerhead_1 links to Rfam database...	0.64	0.57	0.73	8	979	5	0	3	2	6
RFA_00678	Hammerhead_1 links to Rfam database...	0.32	0.21	0.50	3	940	3	0	3	0	11
RFA_00680	Hammerhead_1 links to Rfam database...	0.69	0.64	0.75	9	1116	6	0	3	3	5
RFA_00684	Hammerhead_1 links to Rfam database...	0.75	0.57	1.00	8	982	1	0	0	1	6
RFA_00685	Hammerhead_1 links to Rfam database...	0.35	0.29	0.44	4	981	6	0	5	1	10
RFA_00695	Hammerhead_1 links to Rfam database...	0.22	0.21	0.23	3	7008	22	4	6	12	11
RFA_00703	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	4271	20	0	7	13	14
RFA_00704	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	983	8	0	7	1	14
RFA_00705	Hammerhead_1 links to Rfam database...	0.69	0.64	0.75	9	1023	4	0	3	1	5
RFA_00706	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	1022	13	2	11	0	14
RFA_00707	Hammerhead_1 links to Rfam database...	0.33	0.29	0.40	4	1025	7	0	6	1	10
RFA_00708	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	1027	8	0	8	0	14
RFA_00709	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	980	11	0	10	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	1026	9	0	9	0	14
RFA_00715	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	937	9	0	9	0	14
RFA_00716	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	936	10	0	10	0	14
RFA_00717	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	894	9	0	9	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...	-0.01	0.00	0.00	0	896	7	1	6	0	12
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...	0.16	0.17	0.18	2	892	10	2	7	1	10
RFA_00736	s2m links to Rfam database...	-0.01	0.00	0.00	0	896	7	1	6	0	12
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...	-0.01	0.00	0.00	0	941	5	1	4	0	12
RFA_00749	s2m links to Rfam database...	0.51	0.42	0.63	5	895	4	1	2	1	7
RFA_00758	s2m links to Rfam database...	-0.01	0.00	0.00	0	898	5	0	5	0	12
RFA_00762	s2m links to Rfam database...	0.39	0.42	0.38	5	890	8	2	6	0	7
RFA_00763	s2m links to Rfam database...	0.64	0.42	1.00	5	898	0	0	0	0	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...	0.21	0.22	0.22	4	1873	14	2	12	0	14
RFA_00768	Corona_pk3 links to Rfam database...	-0.01	0.00	0.00	0	1875	16	1	15	0	18
RFA_00769	Corona_pk3 links to Rfam database...	0.50	0.50	0.50	9	1935	9	4	5	0	9
RFA_00770	Corona_pk3 links to Rfam database...	0.65	0.56	0.77	10	2003	3	3	0	0	8
RFA_00773	Corona_pk3 links to Rfam database...	-0.01	0.00	0.00	0	1936	19	1	16	2	18
RFA_00779	Corona_pk3 links to Rfam database...	0.69	0.61	0.79	11	1939	3	3	0	0	7
RFA_00781	Gammaretro_CES links to Rfam database...	0.55	0.53	0.57	17	5020	13	1	12	0	15
RFA_00786	Gammaretro_CES links to Rfam database...	-0.01	0.00	0.00	0	5015	35	5	30	0	32
RFA_00791	Gammaretro_CES links to Rfam database...	0.38	0.34	0.42	11	5125	15	3	12	0	21
RFA_00792	Gammaretro_CES links to Rfam database...	0.57	0.53	0.61	17	5022	11	0	11	0	15
RFA_00801	Gammaretro_CES links to Rfam database...	0.52	0.50	0.55	16	5021	14	3	10	1	16
RFA_00808	RydC links to Rfam database...	1.00	1.00	1.00	16	2000	0	0	0	0	0
RFA_00809	RydC links to Rfam database...	0.45	0.44	0.47	7	2130	8	1	7	0	9
RFA_00814	R2_retro_el links to Rfam database...	0.31	0.34	0.29	14	25151	46	10	25	11	27
RFA_00815	R2_retro_el links to Rfam database...	0.22	0.24	0.20	10	24480	46	18	23	5	31
RFA_00816	R2_retro_el links to Rfam database...	0.31	0.32	0.30	13	23177	38	12	18	8	28
RFA_00817	R2_retro_el links to Rfam database...	0.32	0.34	0.30	14	21898	35	10	23	2	27
RFA_00818	R2_retro_el links to Rfam database...	0.19	0.20	0.19	8	20258	41	8	27	6	33
RFA_00819	R2_retro_el links to Rfam database...	0.27	0.27	0.28	11	27926	53	6	23	24	30
SPR_00020	tRNA links to Rfam database...	0.76	0.80	0.73	16	2679	7	4	2	1	4
SPR_00137	tRNA links to Rfam database...	0.83	0.81	0.85	17	2906	8	0	3	5	4
SPR_00273	tRNA links to Rfam database...	0.76	0.76	0.76	16	2829	5	0	5	0	5
SPR_00394	tRNA links to Rfam database...	0.52	0.52	0.52	11	3634	14	5	5	4	10
SPR_00402	tRNA links to Rfam database...	0.71	0.76	0.67	16	2532	9	4	4	1	5
SPR_00721	tRNA links to Rfam database...	0.62	0.67	0.58	14	2902	10	2	8	0	7
SPR_00816	tRNA links to Rfam database...	0.32	0.35	0.30	7	3463	19	4	12	3	13
SRP_00009	Plant_SRP links to Rfam database...	0.16	0.16	0.18	16	46574	75	9	66	0	86
SRP_00011	Plant_SRP links to Rfam database...	0.05	0.05	0.06	5	46277	78	8	70	0	99
SRP_00012	Plant_SRP links to Rfam database...	0.08	0.08	0.09	8	46275	77	7	70	0	93
SRP_00015	Plant_SRP links to Rfam database...	0.15	0.14	0.17	14	46276	72	10	60	2	85
SRP_00016	Archaea_SRP links to Rfam database...	0.14	0.13	0.15	14	47800	82	3	78	1	95
SRP_00018	Fungi_SRP links to Rfam database...	0.23	0.22	0.25	18	38430	57	5	50	2	63
SRP_00019	Fungi_SRP links to Rfam database...	0.26	0.24	0.28	22	35968	57	6	50	1	69
SRP_00020	Bacteria_small_SRP links to Rfam database...	-0.01	0.00	0.00	0	5538	27	2	25	0	33
SRP_00058	Bacteria_small_SRP links to Rfam database...	-0.01	0.00	0.00	0	5749	29	5	24	0	34
SRP_00069	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	34377	76	2	74	0	85
SRP_00073	Fungi_SRP links to Rfam database...	0.26	0.27	0.25	19	38984	59	18	39	2	52
SRP_00079	Plant_SRP links to Rfam database...	0.14	0.14	0.15	12	41823	72	4	66	2	76
SRP_00084	Bacteria_small_SRP links to Rfam database...	0.17	0.15	0.20	5	5435	20	3	17	0	29
SRP_00085	Plant_SRP links to Rfam database...	0.18	0.17	0.20	17	45366	70	5	63	2	84
SRP_00087	Fungi_SRP links to Rfam database...	0.18	0.21	0.16	12	37327	65	19	43	3	46
SRP_00091	Fungi_SRP links to Rfam database...	0.29	0.28	0.30	27	52885	65	6	57	2	68
SRP_00099	Plant_SRP links to Rfam database...	0.07	0.06	0.08	6	44770	74	8	66	0	89
SRP_00104	Fungi_SRP links to Rfam database...	0.14	0.14	0.14	10	34379	66	12	52	2	59
SRP_00105	Bacteria_small_SRP links to Rfam database...	-0.01	0.00	0.00	0	5534	31	3	28	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...	0.13	0.13	0.14	15	72281	95	7	87	1	104
SRP_00130	Archaea_SRP links to Rfam database...	0.11	0.10	0.12	10	49686	75	10	64	1	87
SRP_00134	Bacteria_large_SRP links to Rfam database...	0.22	0.21	0.25	6	5971	21	5	13	3	23
SRP_00136	Fungi_SRP links to Rfam database...	0.16	0.18	0.15	13	44164	77	23	53	1	58
SRP_00137	Bacteria_small_SRP links to Rfam database...	0.37	0.40	0.34	10	4157	19	6	13	0	15
SRP_00141	Bacteria_small_SRP links to Rfam database...	-0.01	0.00	0.00	0	6299	29	1	28	0	41
SRP_00142	Archaea_SRP links to Rfam database...	0.25	0.26	0.25	24	45959	75	10	63	2	69
SRP_00143	Archaea_SRP links to Rfam database...	0.20	0.20	0.20	20	49668	82	4	78	0	81
SRP_00144	Archaea_SRP links to Rfam database...	0.15	0.14	0.16	13	46582	71	11	59	1	81
SRP_00146	Bacteria_small_SRP links to Rfam database...	-0.01	0.00	0.00	0	5227	26	0	26	0	36
SRP_00148	Fungi_SRP links to Rfam database...	0.06	0.06	0.06	5	50006	81	8	67	6	82
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...	0.11	0.10	0.12	11	46876	84	13	71	0	96
SRP_00157	Fungi_SRP links to Rfam database...	0.11	0.13	0.11	9	44169	76	19	56	1	63
SRP_00160	Fungi_SRP links to Rfam database...	0.17	0.16	0.18	21	86201	99	15	83	1	109
SRP_00175	Fungi_SRP links to Rfam database...	0.13	0.13	0.14	11	44470	70	14	56	0	73
SRP_00178	Plant_SRP links to Rfam database...	0.07	0.07	0.08	7	45668	78	9	69	0	95
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...	0.07	0.07	0.08	7	45963	86	6	80	0	95
SRP_00182	Plant_SRP links to Rfam database...	0.16	0.16	0.17	16	45964	76	7	69	0	85
SRP_00184	Plant_SRP links to Rfam database...	0.07	0.07	0.08	7	45963	87	11	75	1	93
SRP_00188	Plant_SRP links to Rfam database...	0.08	0.09	0.08	7	31041	77	13	64	0	72
SRP_00197	Archaea_SRP links to Rfam database...	0.23	0.23	0.24	23	49359	73	9	64	0	78
SRP_00198	Archaea_SRP links to Rfam database...	0.11	0.11	0.13	11	50953	76	11	65	0	92
SRP_00199	Archaea_SRP links to Rfam database...	0.24	0.24	0.25	25	50938	77	10	67	0	80
SRP_00200	Bacteria_small_SRP links to Rfam database...	0.00	0.00	0.00	0	6871	32	2	30	0	36
SRP_00201	Archaea_SRP links to Rfam database...	0.27	0.26	0.28	29	47792	74	12	62	0	82
SRP_00202	Archaea_SRP links to Rfam database...	0.51	0.50	0.53	59	54173	53	8	45	0	58
SRP_00203	Archaea_SRP links to Rfam database...	0.19	0.19	0.19	20	48725	84	4	79	1	85
SRP_00204	Archaea_SRP links to Rfam database...	0.06	0.06	0.07	6	49055	80	11	69	0	96
SRP_00206	Archaea_SRP links to Rfam database...	0.22	0.20	0.24	22	47803	74	5	65	4	86
SRP_00230	Fungi_SRP links to Rfam database...	0.12	0.11	0.13	10	39543	70	3	65	2	80
SRP_00231	Bacteria_small_SRP links to Rfam database...	-0.01	0.00	0.00	0	5433	27	3	24	0	34
SRP_00239	Plant_SRP links to Rfam database...	0.04	0.04	0.04	4	50301	98	18	80	0	89
SRP_00240	Plant_SRP links to Rfam database...	0.21	0.20	0.22	20	48114	71	10	61	0	82
SRP_00241	Plant_SRP links to Rfam database...	0.07	0.07	0.07	6	45966	85	13	71	1	76
SRP_00252	Metazoa_SRP links to Rfam database...	0.18	0.18	0.17	16	49049	79	7	69	3	73
SRP_00253	Metazoa_SRP links to Rfam database...	0.00	0.00	0.00	0	49361	96	14	80	2	90
SRP_00254	Fungi_SRP links to Rfam database...	0.24	0.25	0.24	15	32322	49	12	36	1	46
SRP_00255	Archaea_SRP links to Rfam database...	0.22	0.22	0.22	21	47490	75	8	67	0	73
SRP_00257	Metazoa_SRP links to Rfam database...	0.30	0.27	0.34	29	50955	58	2	54	2	79
SRP_00260	Metazoa_SRP links to Rfam database...	0.12	0.11	0.13	11	47812	72	7	65	0	89
SRP_00265	Fungi_SRP links to Rfam database...	0.24	0.25	0.23	18	41251	63	9	50	4	55
SRP_00273	Bacteria_small_SRP links to Rfam database...	-0.01	0.00	0.00	0	6754	32	2	30	0	40
SRP_00274	Bacteria_small_SRP links to Rfam database...	0.28	0.26	0.30	10	6870	23	2	21	0	28
SRP_00276	Archaea_SRP links to Rfam database...	0.25	0.25	0.27	27	50620	75	8	66	1	83
SRP_00278	Archaea_SRP links to Rfam database...	0.17	0.16	0.17	17	45958	81	7	74	0	88
SRP_00285	Bacteria_small_SRP links to Rfam database...	-0.01	0.00	0.00	0	3719	22	2	20	0	30
SRP_00301	Fungi_SRP links to Rfam database...	0.11	0.10	0.12	9	32566	65	5	60	0	77
SRP_00302	Fungi_SRP links to Rfam database...	0.25	0.23	0.26	19	41543	57	6	48	3	62
SRP_00308	Bacteria_large_SRP links to Rfam database...	0.29	0.27	0.32	24	36239	52	11	41	0	64
SRP_00322	Archaea_SRP links to Rfam database...	0.16	0.16	0.17	17	48417	82	4	78	0	92
SRP_00323	Archaea_SRP links to Rfam database...	0.23	0.21	0.25	23	47187	69	2	66	1	84
SRP_00328	Metazoa_SRP links to Rfam database...	0.19	0.18	0.21	15	39548	60	10	48	2	70
SRP_00329	Metazoa_SRP links to Rfam database...	0.23	0.22	0.25	19	39826	58	15	43	0	66
SRP_00330	Archaea_SRP links to Rfam database...	0.12	0.13	0.12	12	49989	85	13	72	0	83
SRP_00331	Metazoa_SRP links to Rfam database...	0.19	0.18	0.21	16	37597	62	7	55	0	71
SRP_00332	Archaea_SRP links to Rfam database...	0.29	0.29	0.29	31	50297	75	8	67	0	75
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...	0.19	0.18	0.19	17	44463	71	13	58	0	77
SRP_00340	Metazoa_SRP links to Rfam database...	0.11	0.11	0.11	9	41246	75	9	64	2	73
SRP_00341	Bacteria_small_SRP links to Rfam database...	-0.01	0.00	0.00	0	4725	28	0	28	0	31
SRP_00357	Bacteria_small_SRP links to Rfam database...	-0.01	0.00	0.00	0	5330	26	0	26	0	36
SRP_00361	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	41825	80	8	72	0	90
SRP_00367	Bacteria_small_SRP links to Rfam database...	0.00	0.00	0.00	0	6756	30	1	29	0	35
SRP_00371	Fungi_SRP links to Rfam database...	0.14	0.13	0.15	11	36243	63	7	54	2	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	835
Total TN	6064316
Total FP	219
Total FP CONTRA	17
Total FP INCONS	92
Total FP COMP	110
Total FN	12569

Total Scores
MCC	0.234
Average MCC ± 95% Confidence Intervals	0.193 ± 0.041
Sensitivity	0.062
Positive Predictive Value	0.885
Nr of predictions	244

^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_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_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_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_00618	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	56280	0	0	0	0	61
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_00598	Telomerase-vert links to Rfam database...	0.00	0.00	0.00	0	84666	0	0	0	0	101
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_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
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_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_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_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

^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 Vsfold5 - scored higher in this pairwise comparison

1. Total counts & total scores for Vsfold5

2. Individual counts for Vsfold5 [ 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 ]