CompaRNA - on-line benchmarks of RNA structure prediction methods

Laboratory of Structural Bioinformatics @ Adam Mickiewicz University in Poznan

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Overview

Metric	PETfold_pre2.0(seed)		Carnac(seed)
MCC	0.726	>	0.245
Average MCC ± 95% Confidence Intervals	0.720 ± 0.026	>	0.182 ± 0.038
Sensitivity	0.626	>	0.069
Positive Predictive Value	0.843	<	0.867
Total TP	10488	>	1158
Total TN	10142199	<	10153302
Total FP	3153	>	314
Total FP CONTRA	291	>	24
Total FP INCONS	1659	>	153
Total FP COMP	1203	>	137
Total FN	6261	<	15591
P-value	3.56938820447e-08

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Performance plots

Comparison of performance of PETfold_pre2.0(seed) 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 PETfold_pre2.0(seed) 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 PETfold_pre2.0(seed) and Carnac(seed)).
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(seed) 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 PETfold_pre2.0(seed) and Carnac(seed)).

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Performance of PETfold_pre2.0(seed) - scored higher in this pairwise comparison

1. Total counts & total scores for PETfold_pre2.0(seed)

Total Base Pair Counts
Total TP	10488
Total TN	10142199
Total FP	3153
Total FP CONTRA	291
Total FP INCONS	1659
Total FP COMP	1203
Total FN	6261

Total Scores
MCC	0.726
Average MCC ± 95% Confidence Intervals	0.720 ± 0.026
Sensitivity	0.626
Positive Predictive Value	0.843
Nr of predictions	267

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2. Individual counts for PETfold_pre2.0(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...	0.68	0.57	0.80	43	34137	14	4	7	3	32
ASE_00002	RNaseP_arch links to Rfam database...	0.72	0.62	0.85	45	35458	13	3	5	5	28
ASE_00009	RNaseP_arch links to Rfam database...	0.79	0.75	0.85	50	26047	14	2	7	5	17
ASE_00014	RNaseP_arch links to Rfam database...	0.71	0.60	0.84	64	54209	16	3	9	4	42
ASE_00116	RNaseP_arch links to Rfam database...	0.77	0.71	0.84	47	31570	13	3	6	4	19
ASE_00120	RNaseP_arch links to Rfam database...	0.78	0.69	0.88	65	46897	14	3	6	5	29
ASE_00121	RNaseP_arch links to Rfam database...	0.76	0.68	0.84	63	45075	16	4	8	4	29
ASE_00145	RNaseP_arch links to Rfam database...	0.74	0.62	0.88	69	70047	13	3	6	4	42
ASE_00148	RNaseP_arch links to Rfam database...	0.59	0.42	0.84	64	112499	16	3	9	4	90
ASE_00154	RNaseP_arch links to Rfam database...	0.70	0.60	0.82	64	65263	18	3	11	4	43
ASE_00155	RNaseP_arch links to Rfam database...	0.66	0.49	0.88	69	93450	13	3	6	4	73
ASE_00187	RNaseP_arch links to Rfam database...	0.67	0.54	0.83	62	68560	17	4	9	4	53
ASE_00191	RNaseP_arch links to Rfam database...	0.80	0.75	0.85	46	29592	13	2	6	5	15
ASE_00196	RNaseP_arch links to Rfam database...	0.74	0.69	0.80	52	31561	18	2	11	5	23
ASE_00205	RNaseP_arch links to Rfam database...	0.79	0.70	0.89	63	45985	13	4	4	5	27
ASE_00209	RNaseP_arch links to Rfam database...	0.81	0.75	0.88	66	42996	13	3	6	4	22
ASE_00210	RNaseP_arch links to Rfam database...	0.68	0.65	0.71	42	27202	24	2	15	7	23
ASE_00213	RNaseP_arch links to Rfam database...	0.78	0.74	0.83	49	27202	17	2	8	7	17
ASE_00222	RNaseP_arch links to Rfam database...	0.62	0.44	0.88	69	112023	13	3	6	4	88
ASE_00346	RNaseP_arch links to Rfam database...	0.60	0.53	0.68	51	48130	29	3	21	5	46
ASE_00359	RNaseP_arch links to Rfam database...	0.68	0.56	0.82	45	42723	15	3	7	5	35
ASE_00360	RNaseP_arch links to Rfam database...	0.78	0.72	0.84	47	29347	13	3	6	4	18
ASE_00417	RNaseP_arch links to Rfam database...	0.77	0.68	0.87	68	54537	14	3	7	4	32
ASE_00418	RNaseP_arch links to Rfam database...	0.71	0.61	0.82	46	38725	14	3	7	4	29
CRW_00013	Intron_gpI links to Rfam database...	0.41	0.25	0.66	29	103696	18	0	15	3	86
CRW_00016	Intron_gpI links to Rfam database...	0.40	0.24	0.66	29	77377	17	0	15	2	91
CRW_00024	SSU_rRNA_archaea links to Rfam database...	0.89	0.88	0.90	405	1085153	80	10	33	37	53
CRW_00610	Intron_gpI links to Rfam database...	0.54	0.38	0.76	31	36274	12	1	9	2	50
CRW_00613	Intron_gpI links to Rfam database...	0.40	0.29	0.55	23	34938	22	1	18	3	55
CRW_00614	Intron_gpI links to Rfam database...	0.49	0.39	0.63	22	121736	16	2	11	3	35
CRW_00618	Intron_gpI links to Rfam database...	0.38	0.28	0.52	17	56247	16	2	14	0	44
CRW_00619	Intron_gpI links to Rfam database...	0.46	0.29	0.72	21	164996	11	1	7	3	52
CRW_00620	Intron_gpI links to Rfam database...	0.36	0.25	0.52	16	150944	27	0	15	12	47
CRW_00621	Intron_gpI links to Rfam database...	0.35	0.25	0.49	18	153144	20	3	16	1	53
CRW_00623	Intron_gpI links to Rfam database...	0.43	0.28	0.68	23	129761	14	2	9	3	60
CRW_00633	Intron_gpI links to Rfam database...	0.38	0.24	0.61	25	63505	16	2	14	0	81
CRW_00634	Intron_gpI links to Rfam database...	0.31	0.19	0.50	18	64584	24	1	17	6	76
CRW_00670	Intron_gpI links to Rfam database...	0.51	0.31	0.84	37	70081	8	0	7	1	83
CRW_00671	Intron_gpI links to Rfam database...	0.52	0.32	0.84	37	62791	8	0	7	1	80
CRW_00672	Intron_gpI links to Rfam database...	0.52	0.32	0.84	36	72347	10	0	7	3	75
CRW_00674	Intron_gpI links to Rfam database...	0.25	0.15	0.45	18	83396	25	6	16	3	106
CRW_00676	Intron_gpI links to Rfam database...	0.29	0.16	0.53	18	93494	24	0	16	8	97
CRW_00692	Intron_gpI links to Rfam database...	0.32	0.20	0.53	18	68601	24	0	16	8	72
CRW_01484	5S_rRNA links to Rfam database...	0.91	0.87	0.94	34	7467	5	0	2	3	5
CRW_01499	5S_rRNA links to Rfam database...	0.73	0.68	0.78	28	7965	9	0	8	1	13
CRW_01603	5S_rRNA links to Rfam database...	0.99	0.97	1.00	36	7104	3	0	0	3	1
PDB_00005	Tymo_tRNA-like links to Rfam database...	0.80	0.64	1.00	9	937	0	0	0	0	5
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...	0.85	0.73	1.00	30	5020	0	0	0	0	11
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...	0.68	0.57	0.81	13	2685	3	0	3	0	10
PDB_00810	s2m links to Rfam database...	0.87	0.76	1.00	13	1068	0	0	0	0	4
PDB_00827	Intron_gpI links to Rfam database...	0.50	0.37	0.68	30	26984	14	2	12	0	51
PDB_01001	tRNA links to Rfam database...	0.97	0.94	1.00	17	2128	1	0	0	1	1
PDB_01050	UnaL2 links to Rfam database...	0.48	0.38	0.63	5	622	4	0	3	1	8
PDB_01051	Telomerase-cil links to Rfam database...	0.96	0.92	1.00	12	891	4	0	0	4	1
PDB_01092	glmS links to Rfam database...	0.68	0.56	0.83	29	10118	8	0	6	2	23
PDB_01152	HIV_FS2 links to Rfam database...	0.80	0.71	0.91	10	550	1	0	1	0	4
RFA_00389	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	3	0	0	3	0
RFA_00390	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	3	0	0	3	0
RFA_00391	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	3	0	0	3	0
RFA_00409	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	3	0	0	3	0
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	3	0	0	3	0
RFA_00434	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	3	0	0	3	0
RFA_00436	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	3	0	0	3	0
RFA_00440	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1470	3	0	0	3	0
RFA_00442	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	3	0	0	3	0
RFA_00446	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1470	3	0	0	3	0
RFA_00449	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1470	3	0	0	3	0
RFA_00587	Y_RNA links to Rfam database...	1.00	1.00	1.00	15	4836	5	0	0	5	0
RFA_00597	Telomerase-vert links to Rfam database...	0.75	0.72	0.80	78	97805	27	2	18	7	31
RFA_00598	Telomerase-vert links to Rfam database...	0.71	0.67	0.75	68	84575	39	2	21	16	33
RFA_00599	Telomerase-vert links to Rfam database...	0.88	0.86	0.90	95	101370	21	3	7	11	16
RFA_00600	Telomerase-vert links to Rfam database...	0.81	0.76	0.86	76	120207	25	2	10	13	24
RFA_00601	Telomerase-vert links to Rfam database...	0.87	0.84	0.89	96	99127	25	3	9	13	18
RFA_00602	Telomerase-vert links to Rfam database...	0.82	0.77	0.87	89	101373	22	3	10	9	27
RFA_00603	Telomerase-cil links to Rfam database...	0.96	0.91	1.00	32	13498	0	0	0	0	3
RFA_00604	Telomerase-cil links to Rfam database...	0.96	0.91	1.00	32	13498	0	0	0	0	3
RFA_00605	Telomerase-cil links to Rfam database...	0.96	0.91	1.00	32	15193	0	0	0	0	3
RFA_00606	Telomerase-cil links to Rfam database...	0.91	0.82	1.00	32	21289	0	0	0	0	7
RFA_00607	Telomerase-cil links to Rfam database...	0.94	0.89	1.00	32	17734	0	0	0	0	4
RFA_00609	Telomerase-cil links to Rfam database...	0.93	0.86	1.00	32	17923	0	0	0	0	5
RFA_00610	Telomerase-cil links to Rfam database...	0.93	0.86	1.00	32	17173	0	0	0	0	5
RFA_00611	Telomerase-cil links to Rfam database...	0.96	0.91	1.00	32	13009	0	0	0	0	3
RFA_00613	Telomerase-cil links to Rfam database...	0.96	0.91	1.00	32	12848	0	0	0	0	3
RFA_00615	Telomerase-cil links to Rfam database...	0.85	0.80	0.90	28	13335	3	0	3	0	7
RFA_00620	Telomerase-cil links to Rfam database...	0.89	0.79	1.00	31	21914	0	0	0	0	8
RFA_00621	RNase_MRP links to Rfam database...	0.39	0.29	0.54	22	46319	25	2	17	6	54
RFA_00623	RNase_MRP links to Rfam database...	0.41	0.28	0.59	22	43919	21	2	13	6	56
RFA_00624	RNase_MRP links to Rfam database...	0.67	0.61	0.74	37	30085	17	1	12	4	24
RFA_00626	rne5 links to Rfam database...	0.96	0.92	1.00	80	56536	7	0	0	7	7
RFA_00627	rne5 links to Rfam database...	0.96	0.93	1.00	81	56872	12	0	0	12	6
RFA_00628	rne5 links to Rfam database...	0.96	0.93	1.00	80	57211	12	0	0	12	6
RFA_00630	rne5 links to Rfam database...	0.92	0.87	0.97	76	56875	17	0	2	15	11
RFA_00632	HDV_ribozyme links to Rfam database...	0.69	0.64	0.75	18	4071	6	2	4	0	10
RFA_00636	HDV_ribozyme links to Rfam database...	0.73	0.68	0.79	19	3981	5	2	3	0	9
RFA_00639	7SK links to Rfam database...	0.71	0.66	0.78	57	54542	18	2	14	2	30
RFA_00642	Vimentin3 links to Rfam database...	0.35	0.28	0.45	5	2915	6	0	6	0	13
RFA_00643	Vimentin3 links to Rfam database...	0.34	0.28	0.42	5	2199	7	0	7	0	13
RFA_00644	Vimentin3 links to Rfam database...	0.34	0.28	0.42	5	2689	7	0	7	0	13
RFA_00645	Vimentin3 links to Rfam database...	0.34	0.28	0.42	5	2403	7	0	7	0	13
RFA_00649	Vimentin3 links to Rfam database...	0.34	0.28	0.42	5	2133	7	0	7	0	13
RFA_00651	Vimentin3 links to Rfam database...	0.34	0.28	0.42	5	2068	7	0	7	0	13
RFA_00653	Vimentin3 links to Rfam database...	0.34	0.28	0.42	5	2133	7	0	7	0	13
RFA_00654	Vimentin3 links to Rfam database...	0.34	0.28	0.42	5	2403	7	0	7	0	13
RFA_00658	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	1122	3	0	2	1	10
RFA_00659	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	1122	3	0	2	1	10
RFA_00664	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	984	3	0	2	1	10
RFA_00667	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	984	3	0	2	1	10
RFA_00668	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	984	3	0	2	1	10
RFA_00672	Hammerhead_1 links to Rfam database...	0.45	0.31	0.67	4	897	3	0	2	1	9
RFA_00673	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	1122	3	0	2	1	10
RFA_00674	Hammerhead_1 links to Rfam database...	0.54	0.36	0.83	5	1122	2	0	1	1	9
RFA_00675	Hammerhead_1 links to Rfam database...	0.40	0.21	0.75	3	986	2	0	1	1	11
RFA_00677	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	984	3	0	2	1	10
RFA_00678	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	940	3	0	2	1	10
RFA_00680	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	1122	3	0	2	1	10
RFA_00684	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	984	3	0	2	1	10
RFA_00685	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	984	3	0	2	1	10
RFA_00695	Hammerhead_1 links to Rfam database...	0.50	0.36	0.71	5	7014	3	0	2	1	9
RFA_00703	Hammerhead_1 links to Rfam database...	0.44	0.29	0.67	4	4272	3	0	2	1	10
RFA_00704	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	984	3	0	2	1	10
RFA_00705	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	1029	3	0	2	1	10
RFA_00706	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	1029	3	0	2	1	10
RFA_00707	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	1029	3	0	2	1	10
RFA_00708	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	1029	3	0	2	1	10
RFA_00709	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	984	3	0	2	1	10
RFA_00710	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	984	3	0	2	1	10
RFA_00711	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	1029	3	0	2	1	10
RFA_00715	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	940	3	0	2	1	10
RFA_00716	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	940	3	0	2	1	10
RFA_00717	Hammerhead_1 links to Rfam database...	0.56	0.43	0.75	6	895	2	0	2	0	8
RFA_00730	s2m links to Rfam database...	1.00	1.00	1.00	12	891	1	0	0	1	0
RFA_00731	s2m links to Rfam database...	1.00	1.00	1.00	12	891	1	0	0	1	0
RFA_00733	s2m links to Rfam database...	1.00	1.00	1.00	12	891	1	0	0	1	0
RFA_00734	s2m links to Rfam database...	1.00	1.00	1.00	12	891	1	0	0	1	0
RFA_00736	s2m links to Rfam database...	1.00	1.00	1.00	12	891	1	0	0	1	0
RFA_00737	s2m links to Rfam database...	1.00	1.00	1.00	12	891	1	0	0	1	0
RFA_00745	s2m links to Rfam database...	1.00	1.00	1.00	12	934	1	0	0	1	0
RFA_00749	s2m links to Rfam database...	1.00	1.00	1.00	12	891	1	0	0	1	0
RFA_00758	s2m links to Rfam database...	1.00	1.00	1.00	12	891	1	0	0	1	0
RFA_00762	s2m links to Rfam database...	1.00	1.00	1.00	12	891	1	0	0	1	0
RFA_00763	s2m links to Rfam database...	1.00	1.00	1.00	12	891	1	0	0	1	0
RFA_00764	s2m links to Rfam database...	1.00	1.00	1.00	12	891	1	0	0	1	0
RFA_00765	s2m links to Rfam database...	1.00	1.00	1.00	12	891	1	0	0	1	0
RFA_00767	Corona_pk3 links to Rfam database...	0.63	0.56	0.71	10	1877	4	3	1	0	8
RFA_00768	Corona_pk3 links to Rfam database...	0.63	0.56	0.71	10	1877	4	3	1	0	8
RFA_00769	Corona_pk3 links to Rfam database...	0.63	0.56	0.71	10	1939	4	3	1	0	8
RFA_00770	Corona_pk3 links to Rfam database...	0.63	0.56	0.71	10	2002	4	3	1	0	8
RFA_00773	Corona_pk3 links to Rfam database...	0.63	0.56	0.71	10	1939	4	3	1	0	8
RFA_00779	Corona_pk3 links to Rfam database...	0.63	0.56	0.71	10	1939	4	3	1	0	8
RFA_00781	Gammaretro_CES links to Rfam database...	0.97	0.94	1.00	30	5020	0	0	0	0	2
RFA_00786	Gammaretro_CES links to Rfam database...	0.97	0.94	1.00	30	5020	0	0	0	0	2
RFA_00791	Gammaretro_CES links to Rfam database...	0.97	0.94	1.00	30	5121	0	0	0	0	2
RFA_00792	Gammaretro_CES links to Rfam database...	0.97	0.94	1.00	30	5020	0	0	0	0	2
RFA_00801	Gammaretro_CES links to Rfam database...	0.97	0.94	1.00	30	5020	0	0	0	0	2
RFA_00805	RNAIII links to Rfam database...	0.64	0.49	0.84	73	133299	16	0	14	2	77
RFA_00808	RydC links to Rfam database...	0.71	0.56	0.90	9	2006	1	1	0	0	7
RFA_00809	RydC links to Rfam database...	0.47	0.38	0.60	6	2135	4	0	4	0	10
RFA_00814	R2_retro_el links to Rfam database...	0.98	0.95	1.00	39	25161	5	0	0	5	2
RFA_00815	R2_retro_el links to Rfam database...	0.98	0.95	1.00	39	24492	6	0	0	6	2
RFA_00816	R2_retro_el links to Rfam database...	0.98	0.95	1.00	39	23181	6	0	0	6	2
RFA_00817	R2_retro_el links to Rfam database...	0.98	0.95	1.00	39	21906	4	0	0	4	2
RFA_00818	R2_retro_el links to Rfam database...	0.98	0.95	1.00	39	20262	3	0	0	3	2
RFA_00819	R2_retro_el links to Rfam database...	0.98	0.95	1.00	39	27927	6	0	0	6	2
RFA_00820	bicoid_3 links to Rfam database...	0.86	0.83	0.90	132	151379	33	1	13	19	28
RFA_00830	bicoid_3 links to Rfam database...	0.75	0.73	0.78	112	152485	44	2	29	13	42
SPR_00020	tRNA links to Rfam database...	1.00	1.00	1.00	20	2681	2	0	0	2	0
SPR_00137	tRNA links to Rfam database...	0.95	0.90	1.00	19	2907	3	0	0	3	2
SPR_00273	tRNA links to Rfam database...	0.95	0.95	0.95	20	2829	2	0	1	1	1
SPR_00394	tRNA links to Rfam database...	0.98	0.95	1.00	20	3635	2	0	0	2	1
SPR_00402	tRNA links to Rfam database...	0.98	0.95	1.00	20	2536	2	0	0	2	1
SPR_00721	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	1	0	0	1	0
SPR_00816	tRNA links to Rfam database...	1.00	1.00	1.00	20	3466	2	0	0	2	0
SRP_00009	Plant_SRP links to Rfam database...	0.88	0.84	0.92	86	46572	17	0	7	10	16
SRP_00011	Plant_SRP links to Rfam database...	0.82	0.79	0.86	82	46265	21	0	13	8	22
SRP_00012	Plant_SRP links to Rfam database...	0.87	0.83	0.90	84	46267	20	0	9	11	17
SRP_00015	Plant_SRP links to Rfam database...	0.87	0.84	0.91	83	46269	20	0	8	12	16
SRP_00016	Archaea_SRP links to Rfam database...	0.92	0.87	0.98	95	47798	9	0	2	7	14
SRP_00018	Fungi_SRP links to Rfam database...	0.68	0.56	0.83	45	38449	16	2	7	7	36
SRP_00019	Fungi_SRP links to Rfam database...	0.73	0.55	0.96	50	35994	8	1	1	6	41
SRP_00020	Bacteria_small_SRP links to Rfam database...	0.74	0.64	0.88	21	5541	4	1	2	1	12
SRP_00058	Bacteria_small_SRP links to Rfam database...	0.73	0.62	0.88	21	5754	4	1	2	1	13
SRP_00069	Fungi_SRP links to Rfam database...	0.69	0.56	0.84	48	34396	13	2	7	4	37
SRP_00070	Fungi_SRP links to Rfam database...	0.59	0.40	0.87	48	126701	14	0	7	7	73
SRP_00073	Fungi_SRP links to Rfam database...	0.62	0.54	0.72	38	39007	21	4	11	6	33
SRP_00079	Plant_SRP links to Rfam database...	0.76	0.73	0.80	64	41825	30	0	16	14	24
SRP_00084	Bacteria_small_SRP links to Rfam database...	0.73	0.62	0.88	21	5436	4	1	2	1	13
SRP_00085	Plant_SRP links to Rfam database...	0.87	0.82	0.91	83	45360	20	0	8	12	18
SRP_00087	Fungi_SRP links to Rfam database...	0.41	0.36	0.46	21	37355	32	8	17	7	37
SRP_00091	Fungi_SRP links to Rfam database...	0.60	0.45	0.80	43	52921	16	2	9	5	52
SRP_00099	Plant_SRP links to Rfam database...	0.62	0.62	0.63	59	44756	41	3	32	6	36
SRP_00104	Fungi_SRP links to Rfam database...	0.51	0.45	0.57	31	34399	28	8	15	5	38
SRP_00105	Bacteria_small_SRP links to Rfam database...	0.75	0.59	0.95	20	5544	5	0	1	4	14
SRP_00124	Metazoa_SRP links to Rfam database...	0.71	0.68	0.74	58	37050	32	3	17	12	27
SRP_00127	Fungi_SRP links to Rfam database...	0.65	0.44	0.98	52	72337	6	0	1	5	67
SRP_00130	Archaea_SRP links to Rfam database...	0.79	0.74	0.84	72	49684	29	1	13	15	25
SRP_00136	Fungi_SRP links to Rfam database...	0.60	0.54	0.68	38	44197	24	7	11	6	33
SRP_00137	Bacteria_small_SRP links to Rfam database...	0.51	0.48	0.55	12	4164	12	3	7	2	13
SRP_00141	Bacteria_small_SRP links to Rfam database...	0.65	0.49	0.87	20	6305	5	1	2	2	21
SRP_00142	Archaea_SRP links to Rfam database...	0.92	0.91	0.93	85	45965	17	0	6	11	8
SRP_00143	Archaea_SRP links to Rfam database...	0.85	0.81	0.88	82	49677	24	0	11	13	19
SRP_00144	Archaea_SRP links to Rfam database...	0.92	0.91	0.93	86	46573	18	0	6	12	8
SRP_00146	Bacteria_small_SRP links to Rfam database...	0.69	0.56	0.87	20	5230	5	1	2	2	16
SRP_00148	Fungi_SRP links to Rfam database...	0.71	0.55	0.92	48	50034	10	0	4	6	39
SRP_00152	Plant_SRP links to Rfam database...	0.89	0.83	0.95	86	45662	17	0	5	12	17
SRP_00153	Plant_SRP links to Rfam database...	0.89	0.83	0.95	89	46877	14	0	5	9	18
SRP_00157	Fungi_SRP links to Rfam database...	0.65	0.53	0.79	38	44205	21	2	8	11	34
SRP_00158	Fungi_SRP links to Rfam database...	0.53	0.37	0.78	42	124197	17	4	8	5	73
SRP_00160	Fungi_SRP links to Rfam database...	0.59	0.38	0.91	50	86265	10	1	4	5	80
SRP_00175	Fungi_SRP links to Rfam database...	0.57	0.43	0.77	36	44504	21	0	11	10	48
SRP_00178	Plant_SRP links to Rfam database...	0.91	0.86	0.96	88	45661	15	0	4	11	14
SRP_00179	Plant_SRP links to Rfam database...	0.90	0.85	0.96	89	45963	14	0	4	10	16
SRP_00181	Plant_SRP links to Rfam database...	0.85	0.81	0.89	83	45963	21	0	10	11	19
SRP_00182	Plant_SRP links to Rfam database...	0.88	0.84	0.91	85	45963	17	0	8	9	16
SRP_00184	Plant_SRP links to Rfam database...	0.84	0.80	0.89	80	45966	23	0	10	13	20
SRP_00188	Plant_SRP links to Rfam database...	0.86	0.82	0.90	65	31053	14	0	7	7	14
SRP_00197	Archaea_SRP links to Rfam database...	0.92	0.88	0.96	89	49362	17	1	3	13	12
SRP_00198	Archaea_SRP links to Rfam database...	0.91	0.87	0.96	90	50946	16	1	3	12	13
SRP_00199	Archaea_SRP links to Rfam database...	0.89	0.86	0.93	90	50943	17	1	6	10	15
SRP_00200	Bacteria_small_SRP links to Rfam database...	0.69	0.53	0.90	19	6882	6	1	1	4	17
SRP_00201	Archaea_SRP links to Rfam database...	0.92	0.88	0.95	98	47792	7	2	3	2	13
SRP_00202	Archaea_SRP links to Rfam database...	0.88	0.81	0.95	95	54185	10	1	4	5	22
SRP_00203	Archaea_SRP links to Rfam database...	0.81	0.78	0.84	82	48730	21	1	15	5	23
SRP_00204	Archaea_SRP links to Rfam database...	0.91	0.87	0.95	89	49047	16	0	5	11	13
SRP_00206	Archaea_SRP links to Rfam database...	0.95	0.92	0.98	99	47794	7	0	2	5	9
SRP_00230	Fungi_SRP links to Rfam database...	0.73	0.54	0.98	49	39571	8	0	1	7	41
SRP_00231	Bacteria_small_SRP links to Rfam database...	0.73	0.62	0.88	21	5436	4	1	2	1	13
SRP_00239	Plant_SRP links to Rfam database...	0.55	0.56	0.55	52	50308	51	5	38	8	41
SRP_00240	Plant_SRP links to Rfam database...	0.81	0.77	0.84	79	48111	23	2	13	8	23
SRP_00241	Plant_SRP links to Rfam database...	0.55	0.56	0.55	46	45972	53	9	29	15	36
SRP_00252	Metazoa_SRP links to Rfam database...	0.64	0.66	0.63	59	49047	47	6	29	12	30
SRP_00253	Metazoa_SRP links to Rfam database...	0.65	0.66	0.64	59	49363	45	5	28	12	31
SRP_00254	Fungi_SRP links to Rfam database...	0.34	0.31	0.37	19	32334	39	6	26	7	42
SRP_00255	Archaea_SRP links to Rfam database...	0.79	0.77	0.81	72	47497	31	1	16	14	22
SRP_00257	Metazoa_SRP links to Rfam database...	0.53	0.48	0.58	52	50950	42	5	33	4	56
SRP_00260	Metazoa_SRP links to Rfam database...	0.55	0.53	0.58	53	47804	46	6	32	8	47
SRP_00265	Fungi_SRP links to Rfam database...	0.66	0.56	0.77	41	41275	20	2	10	8	32
SRP_00273	Bacteria_small_SRP links to Rfam database...	0.66	0.50	0.87	20	6763	5	1	2	2	20
SRP_00274	Bacteria_small_SRP links to Rfam database...	0.71	0.55	0.91	21	6880	4	1	1	2	17
SRP_00276	Archaea_SRP links to Rfam database...	0.92	0.87	0.97	96	50622	9	1	2	6	14
SRP_00278	Archaea_SRP links to Rfam database...	0.85	0.81	0.89	85	45961	15	1	9	5	20
SRP_00285	Bacteria_small_SRP links to Rfam database...	0.77	0.63	0.95	19	3721	4	0	1	3	11
SRP_00286	Fungi_SRP links to Rfam database...	0.52	0.30	0.91	52	136969	8	0	5	3	122
SRP_00287	Fungi_SRP links to Rfam database...	0.57	0.33	0.96	54	141722	6	0	2	4	108
SRP_00290	Fungi_SRP links to Rfam database...	0.53	0.34	0.84	46	100521	14	0	9	5	89
SRP_00292	Fungi_SRP links to Rfam database...	0.52	0.29	0.91	51	137494	9	0	5	4	122
SRP_00294	Fungi_SRP links to Rfam database...	0.58	0.34	1.00	57	129229	5	0	0	5	110
SRP_00301	Fungi_SRP links to Rfam database...	0.72	0.53	0.96	46	32592	10	0	2	8	40
SRP_00302	Fungi_SRP links to Rfam database...	0.55	0.43	0.71	35	41567	23	0	14	9	46
SRP_00322	Archaea_SRP links to Rfam database...	0.86	0.81	0.93	88	48421	14	0	7	7	21
SRP_00323	Archaea_SRP links to Rfam database...	0.91	0.85	0.97	91	47184	13	0	3	10	16
SRP_00328	Metazoa_SRP links to Rfam database...	0.61	0.59	0.64	50	39543	34	5	23	6	35
SRP_00329	Metazoa_SRP links to Rfam database...	0.75	0.72	0.78	61	39825	29	2	15	12	24
SRP_00330	Archaea_SRP links to Rfam database...	0.85	0.82	0.89	78	49998	24	1	9	14	17
SRP_00331	Metazoa_SRP links to Rfam database...	0.65	0.61	0.69	53	37598	34	2	22	10	34
SRP_00332	Archaea_SRP links to Rfam database...	0.93	0.89	0.98	94	50307	9	0	2	7	12
SRP_00338	Bacteria_small_SRP links to Rfam database...	0.76	0.61	0.96	22	5437	3	0	1	2	14
SRP_00339	Archaea_SRP links to Rfam database...	0.85	0.82	0.89	77	44464	21	1	9	11	17
SRP_00340	Metazoa_SRP links to Rfam database...	0.53	0.52	0.54	43	41249	51	6	30	15	39
SRP_00341	Bacteria_small_SRP links to Rfam database...	0.42	0.35	0.50	11	4731	14	0	11	3	20
SRP_00357	Bacteria_small_SRP links to Rfam database...	0.71	0.56	0.91	20	5334	5	1	1	3	16
SRP_00361	Plant_SRP links to Rfam database...	0.75	0.74	0.76	67	41817	32	4	17	11	23
SRP_00367	Bacteria_small_SRP links to Rfam database...	0.68	0.51	0.90	18	6766	7	1	1	5	17
SRP_00371	Fungi_SRP links to Rfam database...	0.66	0.54	0.81	44	36261	18	0	10	8	38
SRP_00382	Fungi_SRP links to Rfam database...	0.57	0.33	1.00	56	141722	4	0	0	4	114

^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	1158
Total TN	10153302
Total FP	314
Total FP CONTRA	24
Total FP INCONS	153
Total FP COMP	137
Total FN	15591

Total Scores
MCC	0.245
Average MCC ± 95% Confidence Intervals	0.182 ± 0.038
Sensitivity	0.069
Positive Predictive Value	0.867
Nr of predictions	267

^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_00024	SSU_rRNA_archaea links to Rfam database...	0.73	0.57	0.93	261	1085321	35	6	13	16	197
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_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_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

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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 PETfold_pre2.0(seed) - scored higher in this pairwise comparison

1. Total counts & total scores for PETfold_pre2.0(seed)

2. Individual counts for PETfold_pre2.0(seed) [ 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 ]