CompaRNA - on-line benchmarks of RNA structure prediction methods

Laboratory of Structural Bioinformatics @ Adam Mickiewicz University in Poznan

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Overview

Metric	RNASampler(20)		RNAshapes
MCC	0.677	>	0.560
Average MCC ± 95% Confidence Intervals	0.716 ± 0.026	>	0.637 ± 0.028
Sensitivity	0.522	<	0.556
Positive Predictive Value	0.879	>	0.566
Total TP	8019	<	8540
Total TN	5484405	>	5478443
Total FP	1556	<	7381
Total FP CONTRA	267	<	1050
Total FP INCONS	840	<	5498
Total FP COMP	449	<	833
Total FN	7345	>	6824
P-value	3.56938820447e-08

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Performance plots

Comparison of performance of RNASampler(20) and RNAshapes. 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 RNASampler(20) and RNAshapes).
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 RNASampler(20) and RNAshapes).
Comparison of average Matthews Correlation Coefficients (MCCs) for RNASampler(20) and RNAshapes. 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 RNASampler(20) and RNAshapes).

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Performance of RNASampler(20) - scored higher in this pairwise comparison

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

Total Base Pair Counts
Total TP	8019
Total TN	5484405
Total FP	1556
Total FP CONTRA	267
Total FP INCONS	840
Total FP COMP	449
Total FN	7345

Total Scores
MCC	0.677
Average MCC ± 95% Confidence Intervals	0.716 ± 0.026
Sensitivity	0.522
Positive Predictive Value	0.879
Nr of predictions	392

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

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
ASE_00064	RNaseP_bact_a links to Rfam database...	0.44	0.34	0.58	30	45399	23	1	21	1	59
ASE_00090	RNaseP_bact_a links to Rfam database...	0.54	0.40	0.74	40	55557	14	0	14	0	61
ASE_00135	RNaseP_bact_a links to Rfam database...	0.54	0.36	0.83	39	63143	16	0	8	8	70
ASE_00153	RNaseP_nuc links to Rfam database...	0.38	0.33	0.44	24	57576	38	7	23	8	49
ASE_00215	RNaseP_bact_a links to Rfam database...	0.38	0.23	0.62	23	48479	16	0	14	2	76
ASE_00305	RNaseP_bact_b links to Rfam database...	0.78	0.71	0.86	60	54545	14	1	9	4	25
ASE_00328	RNaseP_bact_b links to Rfam database...	0.70	0.57	0.85	64	72696	14	5	6	3	48
ASE_00361	RNaseP_bact_a links to Rfam database...	0.34	0.21	0.55	27	75417	26	3	19	4	100
ASE_00427	RNaseP_nuc links to Rfam database...	0.57	0.46	0.72	21	40726	18	1	7	10	25
ASE_00441	RNaseP_bact_a links to Rfam database...	0.46	0.31	0.69	35	64210	16	0	16	0	77
CRW_00548	5S_rRNA links to Rfam database...	0.64	0.47	0.86	18	7360	3	0	3	0	20
CRW_00552	5S_rRNA links to Rfam database...	0.75	0.56	1.00	22	7118	1	0	0	1	17
CRW_00555	5S_rRNA links to Rfam database...	0.69	0.55	0.88	22	7601	3	0	3	0	18
CRW_00567	5S_rRNA links to Rfam database...	0.81	0.65	1.00	26	7477	1	0	0	1	14
CRW_00570	5S_rRNA links to Rfam database...	0.91	0.84	1.00	31	6872	1	0	0	1	6
CRW_00573	5S_rRNA links to Rfam database...	0.81	0.65	1.00	26	7114	0	0	0	0	14
CRW_01484	5S_rRNA links to Rfam database...	0.77	0.59	1.00	23	7480	0	0	0	0	16
CRW_01485	5S_rRNA links to Rfam database...	0.65	0.49	0.86	19	7481	3	0	3	0	20
CRW_01487	5S_rRNA links to Rfam database...	0.53	0.41	0.68	17	7478	8	2	6	0	24
CRW_01489	5S_rRNA links to Rfam database...	0.65	0.49	0.86	19	7481	3	0	3	0	20
CRW_01491	5S_rRNA links to Rfam database...	0.65	0.44	0.95	19	8365	1	0	1	0	24
CRW_01492	5S_rRNA links to Rfam database...	0.52	0.43	0.64	18	7598	10	0	10	0	24
CRW_01494	5S_rRNA links to Rfam database...	0.62	0.45	0.86	18	7119	3	0	3	0	22
CRW_01497	5S_rRNA links to Rfam database...	0.53	0.43	0.65	17	7114	9	0	9	0	23
CRW_01498	5S_rRNA links to Rfam database...	0.73	0.53	1.00	23	8105	0	0	0	0	20
CRW_01499	5S_rRNA links to Rfam database...	0.76	0.59	1.00	24	7977	1	0	0	1	17
CRW_01500	5S_rRNA links to Rfam database...	0.64	0.47	0.86	18	7729	3	0	3	0	20
CRW_01501	5S_rRNA links to Rfam database...	0.68	0.51	0.92	23	8490	2	0	2	0	22
CRW_01508	5S_rRNA links to Rfam database...	0.71	0.55	0.92	23	7976	2	0	2	0	19
CRW_01532	5S_rRNA links to Rfam database...	0.84	0.70	1.00	26	7114	2	0	0	2	11
CRW_01533	5S_rRNA links to Rfam database...	0.85	0.73	1.00	27	7113	2	0	0	2	10
CRW_01534	5S_rRNA links to Rfam database...	0.80	0.65	1.00	24	7116	1	0	0	1	13
CRW_01535	5S_rRNA links to Rfam database...	0.73	0.65	0.83	24	7111	7	0	5	2	13
CRW_01536	5S_rRNA links to Rfam database...	0.82	0.68	1.00	25	6996	1	0	0	1	12
CRW_01537	5S_rRNA links to Rfam database...	0.66	0.54	0.80	20	7115	7	0	5	2	17
CRW_01539	5S_rRNA links to Rfam database...	0.84	0.70	1.00	26	7114	2	0	0	2	11
CRW_01540	5S_rRNA links to Rfam database...	0.80	0.65	1.00	24	7116	2	0	0	2	13
CRW_01541	5S_rRNA links to Rfam database...	0.87	0.76	1.00	28	7112	1	0	0	1	9
CRW_01542	5S_rRNA links to Rfam database...	0.85	0.73	1.00	27	7113	2	0	0	2	10
CRW_01544	5S_rRNA links to Rfam database...	0.79	0.62	1.00	23	7117	1	0	0	1	14
CRW_01548	5S_rRNA links to Rfam database...	0.73	0.65	0.83	24	6992	6	0	5	1	13
CRW_01555	5S_rRNA links to Rfam database...	0.73	0.65	0.83	24	9016	7	0	5	2	13
CRW_01556	5S_rRNA links to Rfam database...	0.85	0.73	1.00	27	7113	1	0	0	1	10
CRW_01557	5S_rRNA links to Rfam database...	0.85	0.73	1.00	27	7113	2	0	0	2	10
CRW_01559	5S_rRNA links to Rfam database...	0.93	0.86	1.00	32	7228	2	0	0	2	5
CRW_01562	5S_rRNA links to Rfam database...	0.75	0.57	1.00	21	7119	1	0	0	1	16
CRW_01563	5S_rRNA links to Rfam database...	0.77	0.62	0.96	23	6879	2	0	1	1	14
CRW_01566	5S_rRNA links to Rfam database...	0.66	0.49	0.90	18	7120	3	0	2	1	19
CRW_01568	5S_rRNA links to Rfam database...	0.80	0.65	1.00	24	7116	1	0	0	1	13
CRW_01569	5S_rRNA links to Rfam database...	0.66	0.54	0.80	20	7115	6	0	5	1	17
CRW_01570	5S_rRNA links to Rfam database...	0.85	0.73	1.00	27	7113	2	0	0	2	10
CRW_01572	5S_rRNA links to Rfam database...	0.75	0.59	0.96	22	6998	5	0	1	4	15
CRW_01573	5S_rRNA links to Rfam database...	0.73	0.65	0.83	24	7231	7	0	5	2	13
CRW_01578	5S_rRNA links to Rfam database...	0.85	0.73	1.00	27	7113	2	0	0	2	10
CRW_01580	5S_rRNA links to Rfam database...	0.80	0.65	1.00	24	7116	2	0	0	2	13
CRW_01581	5S_rRNA links to Rfam database...	0.53	0.38	0.74	14	7121	6	0	5	1	23
CRW_01583	5S_rRNA links to Rfam database...	0.77	0.62	0.96	23	7116	2	0	1	1	14
CRW_01584	5S_rRNA links to Rfam database...	0.85	0.73	1.00	27	7113	2	0	0	2	10
CRW_01590	5S_rRNA links to Rfam database...	0.59	0.35	1.00	13	7127	1	0	0	1	24
CRW_01593	5S_rRNA links to Rfam database...	0.80	0.65	1.00	24	7116	1	0	0	1	13
CRW_01595	5S_rRNA links to Rfam database...	0.79	0.62	1.00	23	8492	1	0	0	1	14
CRW_01599	5S_rRNA links to Rfam database...	0.85	0.73	1.00	27	7113	2	0	0	2	10
CRW_01603	5S_rRNA links to Rfam database...	0.75	0.57	1.00	21	7119	1	0	0	1	16
CRW_01605	5S_rRNA links to Rfam database...	0.73	0.54	1.00	20	7120	2	0	0	2	17
CRW_01606	5S_rRNA links to Rfam database...	0.79	0.62	1.00	23	7117	1	0	0	1	14
CRW_01608	5S_rRNA links to Rfam database...	0.82	0.68	1.00	25	8360	1	0	0	1	12
CRW_01616	5S_rRNA links to Rfam database...	0.78	0.73	0.84	27	7108	7	0	5	2	10
CRW_01617	5S_rRNA links to Rfam database...	0.74	0.65	0.86	24	7112	6	0	4	2	13
CRW_01620	5S_rRNA links to Rfam database...	0.85	0.73	1.00	27	6994	1	0	0	1	10
CRW_01621	5S_rRNA links to Rfam database...	0.82	0.68	1.00	25	7115	1	0	0	1	12
CRW_01623	5S_rRNA links to Rfam database...	0.77	0.59	1.00	22	7118	1	0	0	1	15
CRW_01625	5S_rRNA links to Rfam database...	0.87	0.78	0.97	29	7110	2	0	1	1	8
PDB_00012	mir-TAR links to Rfam database...	1.00	1.00	1.00	7	399	2	0	0	2	0
PDB_00070	tRNA links to Rfam database...	0.93	0.88	1.00	21	2829	0	0	0	0	3
PDB_00213	Gammaretro_CES links to Rfam database...	0.75	0.56	1.00	23	5027	0	0	0	0	18
PDB_00229	tRNA links to Rfam database...	0.96	0.91	1.00	21	2754	0	0	0	0	2
PDB_00327	tRNA links to Rfam database...	0.96	0.91	1.00	21	3060	0	0	0	0	2
PDB_00362	tRNA links to Rfam database...	0.88	0.77	1.00	17	2833	0	0	0	0	5
PDB_00402	tRNA links to Rfam database...	0.96	0.91	1.00	21	2754	0	0	0	0	2
PDB_00431	tRNA links to Rfam database...	0.97	0.95	1.00	19	2192	1	0	0	1	1
PDB_00474	tRNA links to Rfam database...	0.86	0.74	1.00	17	2684	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_00571	tRNA links to Rfam database...	0.87	0.80	0.95	20	3300	1	1	0	0	5
PDB_00667	tRNA links to Rfam database...	0.95	0.91	1.00	20	2830	2	0	0	2	2
PDB_00741	Entero_5_CRE links to Rfam database...	0.72	0.53	1.00	9	694	0	0	0	0	8
PDB_00810	s2m links to Rfam database...	0.59	0.35	1.00	6	1075	0	0	0	0	11
PDB_00828	Purine links to Rfam database...	0.86	0.74	1.00	20	2465	0	0	0	0	7
PDB_00829	Purine links to Rfam database...	0.86	0.75	1.00	18	2260	0	0	0	0	6
PDB_00876	HIV_FE links to Rfam database...	0.92	0.90	0.95	18	971	1	0	1	0	2
PDB_01002	tRNA links to Rfam database...	0.90	0.81	1.00	17	2758	0	0	0	0	4
PDB_01020	Purine links to Rfam database...	0.86	0.74	1.00	17	2261	1	0	0	1	6
PDB_01050	UnaL2 links to Rfam database...	0.92	0.85	1.00	11	619	2	0	0	2	2
PDB_01053	tRNA links to Rfam database...	0.77	0.75	0.80	12	1363	3	3	0	0	4
PDB_01073	SAM links to Rfam database...	0.77	0.59	1.00	20	4351	1	0	0	1	14
PDB_01114	TPP links to Rfam database...	0.60	0.48	0.76	13	2833	4	0	4	0	14
PDB_01152	HIV_FS2 links to Rfam database...	0.84	0.71	1.00	10	551	0	0	0	0	4
PDB_01236	ykoK links to Rfam database...	0.79	0.67	0.95	36	11590	3	0	2	1	18
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_00396	Hammerhead_3 links to Rfam database...	0.97	0.93	1.00	14	1417	2	0	0	2	1
RFA_00402	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	0	0	0	0	0
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	2	0	0	2	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_00444	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1525	0	0	0	0	0
RFA_00583	Y_RNA links to Rfam database...	1.00	1.00	1.00	15	4935	10	0	0	10	0
RFA_00584	Y_RNA links to Rfam database...	1.00	1.00	1.00	15	2911	8	0	0	8	0
RFA_00585	Y_RNA links to Rfam database...	1.00	1.00	1.00	15	4836	8	0	0	8	0
RFA_00586	Y_RNA links to Rfam database...	0.89	0.80	1.00	12	3904	1	0	0	1	3
RFA_00587	Y_RNA links to Rfam database...	1.00	1.00	1.00	15	4836	8	0	0	8	0
RFA_00588	Y_RNA links to Rfam database...	1.00	1.00	1.00	15	4545	8	0	0	8	0
RFA_00589	Y_RNA links to Rfam database...	1.00	1.00	1.00	15	4356	7	0	0	7	0
RFA_00594	Y_RNA links to Rfam database...	0.93	0.87	1.00	13	2762	5	0	0	5	2
RFA_00596	Y_RNA links to Rfam database...	0.82	0.67	1.00	10	5985	13	0	0	13	5
RFA_00658	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...	0.00	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	986	5	0	4	1	14
RFA_00668	Hammerhead_1 links to Rfam database...	0.53	0.29	1.00	4	986	0	0	0	0	10
RFA_00672	Hammerhead_1 links to Rfam database...	0.41	0.31	0.57	4	896	3	0	3	0	9
RFA_00673	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	1125	4	0	3	1	14
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...	0.53	0.29	1.00	4	986	0	0	0	0	10
RFA_00677	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	990	0	0	0	0	14
RFA_00678	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	943	3	0	3	0	14
RFA_00680	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	1128	0	0	0	0	14
RFA_00704	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	987	4	0	3	1	14
RFA_00707	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	1035	0	0	0	0	14
RFA_00715	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...	0.81	0.67	1.00	8	895	1	0	0	1	4
RFA_00731	s2m links to Rfam database...	0.81	0.67	1.00	8	895	1	0	0	1	4
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...	0.50	0.25	1.00	3	900	0	0	0	0	9
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...	0.50	0.25	1.00	3	943	0	0	0	0	9
RFA_00749	s2m links to Rfam database...	0.50	0.25	1.00	3	900	0	0	0	0	9
RFA_00758	s2m links to Rfam database...	0.76	0.58	1.00	7	896	0	0	0	0	5
RFA_00762	s2m links to Rfam database...	0.50	0.25	1.00	3	900	0	0	0	0	9
RFA_00763	s2m links to Rfam database...	0.81	0.67	1.00	8	895	1	0	0	1	4
RFA_00764	s2m links to Rfam database...	0.81	0.67	1.00	8	895	1	0	0	1	4
RFA_00765	s2m links to Rfam database...	0.81	0.67	1.00	8	895	1	0	0	1	4
RFA_00786	Gammaretro_CES links to Rfam database...	0.72	0.63	0.83	20	5026	4	2	2	0	12
RFA_00791	Gammaretro_CES links to Rfam database...	0.71	0.56	0.90	18	5131	2	0	2	0	14
RFA_00792	Gammaretro_CES links to Rfam database...	0.81	0.72	0.92	23	5025	2	0	2	0	9
RFA_00801	Gammaretro_CES links to Rfam database...	0.74	0.63	0.87	20	5027	3	0	3	0	12
SPR_00007	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00009	tRNA links to Rfam database...	1.00	1.00	1.00	20	2830	0	0	0	0	0
SPR_00010	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00012	tRNA links to Rfam database...	0.97	0.95	1.00	19	2831	0	0	0	0	1
SPR_00013	tRNA links to Rfam database...	0.97	0.95	1.00	19	2831	0	0	0	0	1
SPR_00016	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00017	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00025	tRNA links to Rfam database...	1.00	1.00	1.00	20	2906	1	0	0	1	0
SPR_00026	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	0	0	0	0	0
SPR_00027	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	0	0	0	0	0
SPR_00036	tRNA links to Rfam database...	0.89	0.80	1.00	16	2759	1	0	0	1	4
SPR_00045	tRNA links to Rfam database...	1.00	1.00	1.00	22	2828	0	0	0	0	0
SPR_00064	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00065	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00066	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00068	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00070	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00074	tRNA links to Rfam database...	0.97	0.95	1.00	19	2831	0	0	0	0	1
SPR_00079	tRNA links to Rfam database...	0.92	0.84	1.00	16	2469	1	0	0	1	3
SPR_00086	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00087	tRNA links to Rfam database...	0.95	0.90	1.00	18	2832	0	0	0	0	2
SPR_00088	tRNA links to Rfam database...	0.95	0.90	1.00	18	2832	0	0	0	0	2
SPR_00089	tRNA links to Rfam database...	0.84	0.70	1.00	14	2836	0	0	0	0	6
SPR_00090	tRNA links to Rfam database...	0.95	0.90	1.00	18	2832	0	0	0	0	2
SPR_00091	tRNA links to Rfam database...	0.84	0.70	1.00	14	2836	0	0	0	0	6
SPR_00095	tRNA links to Rfam database...	0.90	0.81	1.00	17	2833	0	0	0	0	4
SPR_00111	tRNA links to Rfam database...	1.00	1.00	1.00	21	2680	1	0	0	1	0
SPR_00112	tRNA links to Rfam database...	1.00	1.00	1.00	21	2680	2	0	0	2	0
SPR_00115	tRNA links to Rfam database...	1.00	1.00	1.00	21	2680	0	0	0	0	0
SPR_00117	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	2	0	0	2	0
SPR_00139	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	0	0	0	0	0
SPR_00153	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	0	0	0	0	0
SPR_00155	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	0	0	0	0	0
SPR_00156	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	0	0	0	0	0
SPR_00176	tRNA links to Rfam database...	0.85	0.85	0.85	17	2830	3	2	1	0	3
SPR_00177	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00178	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00191	tRNA links to Rfam database...	0.90	0.81	1.00	17	2833	0	0	0	0	4
SPR_00200	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00224	tRNA links to Rfam database...	0.92	0.85	1.00	17	3724	0	0	0	0	3
SPR_00271	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00273	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00276	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	0	0	0	0	0
SPR_00277	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	0	0	0	0	0
SPR_00294	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00295	tRNA links to Rfam database...	0.90	0.81	1.00	17	2758	0	0	0	0	4
SPR_00314	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	2	0	0	2	0
SPR_00315	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	2	0	0	2	0
SPR_00317	tRNA links to Rfam database...	1.00	1.00	1.00	20	2906	0	0	0	0	0
SPR_00318	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	2	0	0	2	0
SPR_00321	tRNA links to Rfam database...	1.00	1.00	1.00	21	2982	0	0	0	0	0
SPR_00333	tRNA links to Rfam database...	0.86	0.86	0.86	18	2754	3	0	3	0	3
SPR_00352	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	0	0	0	0	0
SPR_00353	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00357	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	0	0	0	0	0
SPR_00358	tRNA links to Rfam database...	1.00	1.00	1.00	20	2906	0	0	0	0	0
SPR_00370	tRNA links to Rfam database...	1.00	1.00	1.00	21	2754	0	0	0	0	0
SPR_00386	tRNA links to Rfam database...	1.00	1.00	1.00	20	4166	0	0	0	0	0
SPR_00414	tRNA links to Rfam database...	0.93	0.86	1.00	18	3552	0	0	0	0	3
SPR_00415	tRNA links to Rfam database...	1.00	1.00	1.00	21	3549	0	0	0	0	0
SPR_00417	tRNA links to Rfam database...	0.90	0.82	1.00	18	3552	0	0	0	0	4
SPR_00418	tRNA links to Rfam database...	0.90	0.82	1.00	18	3552	0	0	0	0	4
SPR_00434	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00435	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00436	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	2	0	0	2	0
SPR_00437	tRNA links to Rfam database...	1.00	1.00	1.00	21	2754	2	0	0	2	0
SPR_00438	tRNA links to Rfam database...	1.00	1.00	1.00	21	2754	0	0	0	0	0
SPR_00452	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00455	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00456	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	2	0	0	2	0
SPR_00476	tRNA links to Rfam database...	0.90	0.81	1.00	17	2758	0	0	0	0	4
SPR_00479	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00482	tRNA links to Rfam database...	1.00	1.00	1.00	21	2680	0	0	0	0	0
SPR_00483	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00487	tRNA links to Rfam database...	1.00	1.00	1.00	22	2679	0	0	0	0	0
SPR_00493	tRNA links to Rfam database...	0.88	0.82	0.95	18	2756	1	0	1	0	4
SPR_00496	tRNA links to Rfam database...	1.00	1.00	1.00	21	2754	0	0	0	0	0
SPR_00497	tRNA links to Rfam database...	0.90	0.81	1.00	17	2758	0	0	0	0	4
SPR_00502	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	0	0	0	0	0
SPR_00504	tRNA links to Rfam database...	1.00	1.00	1.00	20	2830	0	0	0	0	0
SPR_00505	tRNA links to Rfam database...	1.00	1.00	1.00	20	2906	0	0	0	0	0
SPR_00506	tRNA links to Rfam database...	1.00	1.00	1.00	20	2906	0	0	0	0	0
SPR_00509	tRNA links to Rfam database...	1.00	1.00	1.00	20	2906	0	0	0	0	0
SPR_00512	tRNA links to Rfam database...	1.00	1.00	1.00	20	2906	0	0	0	0	0
SPR_00513	tRNA links to Rfam database...	1.00	1.00	1.00	20	2906	0	0	0	0	0
SPR_00518	tRNA links to Rfam database...	1.00	1.00	1.00	20	2906	0	0	0	0	0
SPR_00548	tRNA links to Rfam database...	0.80	0.86	0.75	18	3379	6	2	4	0	3
SPR_00561	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00590	tRNA links to Rfam database...	0.83	0.85	0.81	17	2982	5	1	3	1	3
SPR_00593	tRNA links to Rfam database...	0.89	0.79	1.00	15	2760	1	0	0	1	4
SPR_00595	tRNA links to Rfam database...	1.00	1.00	1.00	21	2754	0	0	0	0	0
SPR_00598	tRNA links to Rfam database...	0.82	0.76	0.89	16	2985	3	0	2	1	5
SPR_00610	tRNA links to Rfam database...	0.82	0.76	0.89	16	2538	3	0	2	1	5
SPR_00620	tRNA links to Rfam database...	0.87	0.81	0.94	17	2985	2	0	1	1	4
SPR_00721	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	2	0	0	2	0
SPR_00722	tRNA links to Rfam database...	0.84	0.80	0.89	16	2908	3	0	2	1	4
SPR_00758	tRNA links to Rfam database...	1.00	1.00	1.00	21	2982	0	0	0	0	0
SPR_00760	tRNA links to Rfam database...	1.00	1.00	1.00	21	3549	0	0	0	0	0
SPR_00777	tRNA links to Rfam database...	0.95	0.90	1.00	18	2610	1	0	0	1	2
SPR_00867	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	0	0	0	0	0
SPR_00868	tRNA links to Rfam database...	0.95	0.95	0.95	20	2905	2	0	1	1	1
SPR_00943	tRNA links to Rfam database...	0.84	0.75	0.94	15	2540	2	0	1	1	5
SPR_00957	tRNA links to Rfam database...	1.00	1.00	1.00	21	2982	1	0	0	1	0
SPR_01040	tRNA links to Rfam database...	0.87	0.81	0.94	17	2757	2	0	1	1	4
SPR_01088	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	0	0	0	0	0
SPR_01095	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_01106	tRNA links to Rfam database...	1.00	1.00	1.00	21	2535	2	0	0	2	0
SPR_01117	tRNA links to Rfam database...	1.00	1.00	1.00	21	2982	0	0	0	0	0
SPR_01157	tRNA links to Rfam database...	0.95	0.95	0.95	20	2754	2	0	1	1	1
SRP_00006	Metazoa_SRP links to Rfam database...	0.87	0.76	0.99	77	45675	4	0	1	3	24
SRP_00008	Bacteria_small_SRP links to Rfam database...	0.66	0.44	1.00	11	2915	0	0	0	0	14
SRP_00011	Plant_SRP links to Rfam database...	0.55	0.42	0.71	44	46298	18	4	14	0	60
SRP_00015	Plant_SRP links to Rfam database...	0.74	0.59	0.94	58	46298	5	3	1	1	41
SRP_00020	Bacteria_small_SRP links to Rfam database...	0.46	0.21	1.00	7	5558	0	0	0	0	26
SRP_00024	Bacteria_large_SRP links to Rfam database...	0.28	0.08	1.00	7	37668	0	0	0	0	80
SRP_00026	Bacteria_large_SRP links to Rfam database...	0.51	0.27	0.96	24	36831	1	0	1	0	64
SRP_00030	Bacteria_large_SRP links to Rfam database...	0.28	0.08	1.00	7	36849	0	0	0	0	81
SRP_00031	Bacteria_large_SRP links to Rfam database...	0.35	0.12	1.00	11	36304	0	0	0	0	78
SRP_00037	Bacteria_large_SRP links to Rfam database...	0.00	0.00	0.00	0	36585	0	0	0	0	87
SRP_00038	Bacteria_small_SRP links to Rfam database...	0.46	0.21	1.00	7	5043	0	0	0	0	26
SRP_00042	Bacteria_small_SRP links to Rfam database...	0.64	0.48	0.86	12	3991	3	1	1	1	13
SRP_00044	Bacteria_small_SRP links to Rfam database...	0.47	0.22	1.00	7	6098	0	0	0	0	25
SRP_00046	Bacteria_small_SRP links to Rfam database...	0.47	0.22	1.00	7	4746	0	0	0	0	25
SRP_00050	Metazoa_SRP links to Rfam database...	0.86	0.76	0.99	75	44774	3	0	1	2	24
SRP_00051	Bacteria_small_SRP links to Rfam database...	0.48	0.23	1.00	7	5453	0	0	0	0	23
SRP_00054	Bacteria_small_SRP links to Rfam database...	0.47	0.22	1.00	7	5558	0	0	0	0	25
SRP_00057	Bacteria_small_SRP links to Rfam database...	0.45	0.20	1.00	7	6321	0	0	0	0	28
SRP_00058	Bacteria_small_SRP links to Rfam database...	0.45	0.21	1.00	7	5771	0	0	0	0	27
SRP_00066	Metazoa_SRP links to Rfam database...	0.81	0.66	0.99	66	45384	1	0	1	0	34
SRP_00074	Bacteria_small_SRP links to Rfam database...	0.49	0.24	1.00	7	6548	0	0	0	0	22
SRP_00075	Bacteria_small_SRP links to Rfam database...	0.45	0.21	1.00	7	5558	0	0	0	0	27
SRP_00077	Bacteria_small_SRP links to Rfam database...	0.43	0.19	1.00	7	6663	0	0	0	0	30
SRP_00084	Bacteria_small_SRP links to Rfam database...	0.45	0.21	1.00	7	5453	0	0	0	0	27
SRP_00086	Metazoa_SRP links to Rfam database...	0.87	0.77	0.99	77	44175	3	0	1	2	23
SRP_00088	Bacteria_large_SRP links to Rfam database...	0.40	0.16	1.00	14	34177	0	0	0	0	75
SRP_00089	Bacteria_large_SRP links to Rfam database...	0.00	0.00	0.00	0	35778	0	0	0	0	90
SRP_00090	Bacteria_large_SRP links to Rfam database...	0.00	0.00	0.00	0	35511	0	0	0	0	90
SRP_00094	Bacteria_small_SRP links to Rfam database...	0.52	0.42	0.67	10	4080	5	1	4	0	14
SRP_00095	Bacteria_small_SRP links to Rfam database...	0.51	0.40	0.67	10	3990	5	1	4	0	15
SRP_00098	Bacteria_small_SRP links to Rfam database...	0.30	0.16	0.55	6	6430	6	0	5	1	31
SRP_00102	Metazoa_SRP links to Rfam database...	0.86	0.77	0.95	78	44469	4	0	4	0	23
SRP_00103	Metazoa_SRP links to Rfam database...	0.80	0.64	1.00	65	45386	0	0	0	0	37
SRP_00105	Bacteria_small_SRP links to Rfam database...	0.19	0.09	0.43	3	5558	4	0	4	0	31
SRP_00107	Bacteria_small_SRP links to Rfam database...	0.24	0.16	0.38	3	3647	5	0	5	0	16
SRP_00121	Bacteria_small_SRP links to Rfam database...	0.53	0.28	1.00	7	4271	0	0	0	0	18
SRP_00128	Bacteria_small_SRP links to Rfam database...	0.44	0.19	1.00	7	6779	0	0	0	0	29
SRP_00132	Bacteria_small_SRP links to Rfam database...	0.49	0.24	1.00	7	4844	0	0	0	0	22
SRP_00134	Bacteria_large_SRP links to Rfam database...	0.49	0.28	0.89	8	5986	3	0	1	2	21
SRP_00141	Bacteria_small_SRP links to Rfam database...	0.41	0.17	1.00	7	6321	0	0	0	0	34
SRP_00152	Plant_SRP links to Rfam database...	0.52	0.27	1.00	28	45725	0	0	0	0	75
SRP_00161	Bacteria_small_SRP links to Rfam database...	0.56	0.32	1.00	7	2843	0	0	0	0	15
SRP_00162	Bacteria_small_SRP links to Rfam database...	0.55	0.30	1.00	7	2919	0	0	0	0	16
SRP_00163	Bacteria_small_SRP links to Rfam database...	0.52	0.27	1.00	7	3479	0	0	0	0	19
SRP_00164	Bacteria_small_SRP links to Rfam database...	0.45	0.20	1.00	7	6896	0	0	0	0	28
SRP_00170	Bacteria_small_SRP links to Rfam database...	0.64	0.48	0.86	12	4081	3	1	1	1	13
SRP_00171	Metazoa_SRP links to Rfam database...	0.74	0.61	0.89	54	45390	7	2	5	0	34
SRP_00178	Plant_SRP links to Rfam database...	0.36	0.13	1.00	13	45740	0	0	0	0	89
SRP_00179	Plant_SRP links to Rfam database...	0.39	0.16	0.94	17	46038	1	0	1	0	88
SRP_00181	Plant_SRP links to Rfam database...	0.41	0.17	1.00	17	46039	0	0	0	0	85
SRP_00182	Plant_SRP links to Rfam database...	0.78	0.66	0.92	67	45983	6	0	6	0	34
SRP_00188	Plant_SRP links to Rfam database...	0.26	0.14	0.48	11	31102	12	1	11	0	68
SRP_00194	Bacteria_small_SRP links to Rfam database...	0.53	0.29	1.00	6	3234	0	0	0	0	15
SRP_00200	Bacteria_small_SRP links to Rfam database...	0.44	0.19	1.00	7	6896	0	0	0	0	29
SRP_00209	Bacteria_small_SRP links to Rfam database...	0.30	0.19	0.50	5	4646	5	0	5	0	22
SRP_00213	Bacteria_small_SRP links to Rfam database...	0.67	0.52	0.87	13	4171	2	1	1	0	12
SRP_00215	Bacteria_small_SRP links to Rfam database...	0.53	0.28	1.00	7	3233	0	0	0	0	18
SRP_00227	Bacteria_small_SRP links to Rfam database...	0.59	0.35	1.00	11	5140	0	0	0	0	20
SRP_00228	Metazoa_SRP links to Rfam database...	0.88	0.78	0.99	74	45376	7	0	1	6	21
SRP_00231	Bacteria_small_SRP links to Rfam database...	0.45	0.21	1.00	7	5453	0	0	0	0	27
SRP_00233	Bacteria_small_SRP links to Rfam database...	0.35	0.12	1.00	4	5147	0	0	0	0	29
SRP_00234	Bacteria_large_SRP links to Rfam database...	0.47	0.23	0.95	20	36294	1	0	1	0	66
SRP_00243	Bacteria_small_SRP links to Rfam database...	0.47	0.23	1.00	7	5144	0	0	0	0	24
SRP_00244	Bacteria_small_SRP links to Rfam database...	0.42	0.18	1.00	7	6896	0	0	0	0	32
SRP_00250	Bacteria_small_SRP links to Rfam database...	0.44	0.19	1.00	7	6779	0	0	0	0	29
SRP_00251	Bacteria_small_SRP links to Rfam database...	0.44	0.19	1.00	7	7014	0	0	0	0	29
SRP_00266	Bacteria_small_SRP links to Rfam database...	0.49	0.24	1.00	7	4649	0	0	0	0	22
SRP_00268	Bacteria_small_SRP links to Rfam database...	0.72	0.59	0.89	16	4168	2	1	1	0	11
SRP_00269	Bacteria_small_SRP links to Rfam database...	0.55	0.30	1.00	10	5040	0	0	0	0	23
SRP_00270	Bacteria_small_SRP links to Rfam database...	0.27	0.13	0.57	4	4649	3	0	3	0	27
SRP_00271	Bacteria_small_SRP links to Rfam database...	0.54	0.29	1.00	7	3233	0	0	0	0	17
SRP_00273	Bacteria_small_SRP links to Rfam database...	0.52	0.28	1.00	11	6775	0	0	0	0	29
SRP_00274	Bacteria_small_SRP links to Rfam database...	0.43	0.18	1.00	7	6896	0	0	0	0	31
SRP_00295	Bacteria_small_SRP links to Rfam database...	0.40	0.16	1.00	6	6897	0	0	0	0	32
SRP_00303	Bacteria_small_SRP links to Rfam database...	0.19	0.09	0.38	3	6662	5	0	5	0	29
SRP_00308	Bacteria_large_SRP links to Rfam database...	0.28	0.08	1.00	7	36308	0	0	0	0	81
SRP_00312	Bacteria_small_SRP links to Rfam database...	0.49	0.37	0.67	10	4171	5	1	4	0	17
SRP_00315	Bacteria_small_SRP links to Rfam database...	0.55	0.30	1.00	7	2919	0	0	0	0	16
SRP_00317	Metazoa_SRP links to Rfam database...	0.76	0.61	0.95	60	45087	8	0	3	5	38
SRP_00318	Bacteria_small_SRP links to Rfam database...	0.55	0.30	1.00	7	2996	0	0	0	0	16
SRP_00325	Bacteria_small_SRP links to Rfam database...	0.46	0.21	1.00	7	4364	0	0	0	0	26
SRP_00326	Bacteria_small_SRP links to Rfam database...	0.27	0.13	0.57	4	5043	3	0	3	0	27
SRP_00333	Bacteria_small_SRP links to Rfam database...	0.45	0.21	1.00	7	5144	0	0	0	0	27
SRP_00335	Bacteria_large_SRP links to Rfam database...	0.42	0.18	1.00	7	35238	0	0	0	0	32
SRP_00337	Bacteria_large_SRP links to Rfam database...	0.38	0.14	1.00	13	35498	0	0	0	0	78
SRP_00338	Bacteria_small_SRP links to Rfam database...	0.44	0.19	1.00	7	5453	0	0	0	0	29
SRP_00341	Bacteria_small_SRP links to Rfam database...	0.47	0.23	1.00	7	4746	0	0	0	0	24
SRP_00347	Metazoa_SRP links to Rfam database...	0.80	0.66	0.98	63	46601	5	0	1	4	33
SRP_00350	Bacteria_small_SRP links to Rfam database...	0.62	0.44	0.86	12	3902	2	1	1	0	15
SRP_00356	Bacteria_small_SRP links to Rfam database...	0.48	0.23	1.00	7	5043	0	0	0	0	23
SRP_00357	Bacteria_small_SRP links to Rfam database...	0.55	0.31	1.00	11	5345	0	0	0	0	25
SRP_00358	Bacteria_small_SRP links to Rfam database...	0.45	0.20	1.00	7	6321	0	0	0	0	28
SRP_00367	Bacteria_small_SRP links to Rfam database...	0.45	0.20	1.00	7	6779	0	0	0	0	28
SRP_00368	Metazoa_SRP links to Rfam database...	0.77	0.59	1.00	58	43898	2	0	0	2	40
SRP_00369	Bacteria_small_SRP links to Rfam database...	0.45	0.20	1.00	7	5771	0	0	0	0	28
SRP_00383	Bacteria_small_SRP links to Rfam database...	0.54	0.29	1.00	7	3233	0	0	0	0	17
TMR_00017	tmRNA links to Rfam database...	0.60	0.45	0.81	46	67104	15	2	9	4	56
TMR_00018	tmRNA links to Rfam database...	0.52	0.41	0.64	38	64561	25	10	11	4	54
TMR_00042	tmRNA links to Rfam database...	0.60	0.42	0.85	41	62787	13	0	7	6	57
TMR_00046	tmRNA links to Rfam database...	0.48	0.40	0.58	38	62769	34	5	23	6	58
TMR_00048	tmRNA links to Rfam database...	0.61	0.46	0.80	44	64925	16	3	8	5	51
TMR_00080	tmRNA links to Rfam database...	0.49	0.41	0.60	39	70435	28	10	16	2	57
TMR_00082	tmRNA links to Rfam database...	0.43	0.31	0.59	30	67845	21	13	8	0	66
TMR_00123	tmRNA links to Rfam database...	0.60	0.46	0.79	46	66372	17	3	9	5	55
TMR_00137	tmRNA links to Rfam database...	0.47	0.37	0.59	33	61019	28	11	12	5	56
TMR_00142	tmRNA links to Rfam database...	0.56	0.47	0.67	48	70804	31	9	15	7	54
TMR_00207	tmRNA links to Rfam database...	0.52	0.39	0.70	40	72333	21	4	13	4	63
TMR_00257	tmRNA links to Rfam database...	0.56	0.40	0.78	39	67111	16	3	8	5	59
TMR_00271	tmRNA links to Rfam database...	0.48	0.34	0.69	31	64216	21	7	7	7	60
TMR_00332	tmRNA links to Rfam database...	0.52	0.41	0.66	41	67099	22	6	15	1	58
TMR_00378	tmRNA links to Rfam database...	0.55	0.46	0.65	45	67827	35	8	16	11	52
TMR_00404	tmRNA links to Rfam database...	0.66	0.54	0.81	50	67466	20	4	8	8	42
TMR_00427	tmRNA links to Rfam database...	0.47	0.34	0.65	33	67477	20	7	11	2	64
TMR_00443	tmRNA links to Rfam database...	0.56	0.41	0.75	43	67104	14	6	8	0	61
TMR_00451	tmRNA links to Rfam database...	0.34	0.25	0.47	22	63499	29	10	15	4	67
TMR_00458	tmRNA links to Rfam database...	0.55	0.42	0.72	39	63492	15	7	8	0	54
TMR_00469	tmRNA links to Rfam database...	0.72	0.61	0.86	61	64549	11	4	6	1	39
TMR_00472	tmRNA links to Rfam database...	0.75	0.63	0.88	61	64551	13	2	6	5	36
TMR_00519	tmRNA links to Rfam database...	0.50	0.40	0.62	38	63129	27	14	9	4	57
TMR_00520	tmRNA links to Rfam database...	0.40	0.31	0.52	31	63130	33	12	17	4	68
TMR_00522	tmRNA links to Rfam database...	0.54	0.42	0.68	41	63130	24	9	10	5	56
TMR_00528	tmRNA links to Rfam database...	0.49	0.40	0.59	39	63124	31	12	15	4	58
TMR_00540	tmRNA links to Rfam database...	0.47	0.37	0.59	38	73472	26	10	16	0	66
TMR_00568	tmRNA links to Rfam database...	0.72	0.66	0.78	65	60643	26	2	16	8	34
TMR_00571	tmRNA links to Rfam database...	0.77	0.71	0.83	70	60642	22	2	12	8	29
TMR_00580	tmRNA links to Rfam database...	0.53	0.47	0.59	47	60647	40	3	29	8	53
TMR_00584	tmRNA links to Rfam database...	0.71	0.65	0.79	63	60995	25	3	14	8	34
TMR_00586	tmRNA links to Rfam database...	0.61	0.52	0.72	50	61006	26	5	14	7	47
TMR_00616	tmRNA links to Rfam database...	0.66	0.57	0.77	56	67088	23	3	14	6	43
TMR_00699	tmRNA links to Rfam database...	0.54	0.38	0.76	39	67110	13	3	9	1	63
TMR_00702	tmRNA links to Rfam database...	0.42	0.32	0.56	32	67104	28	3	22	3	68
TMR_00703	tmRNA links to Rfam database...	0.56	0.41	0.76	41	67474	18	3	10	5	58

^top

Performance of RNAshapes - scored lower in this pairwise comparison

1. Total counts & total scores for RNAshapes

Total Base Pair Counts
Total TP	8540
Total TN	5478443
Total FP	7381
Total FP CONTRA	1050
Total FP INCONS	5498
Total FP COMP	833
Total FN	6824

Total Scores
MCC	0.560
Average MCC ± 95% Confidence Intervals	0.637 ± 0.028
Sensitivity	0.556
Positive Predictive Value	0.566
Nr of predictions	392

^top

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

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
ASE_00064	RNaseP_bact_a links to Rfam database...	0.48	0.46	0.50	41	45369	49	2	39	8	48
ASE_00090	RNaseP_bact_a links to Rfam database...	0.52	0.51	0.52	52	55511	54	3	45	6	49
ASE_00135	RNaseP_bact_a links to Rfam database...	0.47	0.44	0.49	48	63093	56	4	45	7	61
ASE_00153	RNaseP_nuc links to Rfam database...	0.35	0.40	0.32	29	57538	88	15	48	25	44
ASE_00215	RNaseP_bact_a links to Rfam database...	0.53	0.51	0.56	50	48426	43	2	38	3	49
ASE_00305	RNaseP_bact_b links to Rfam database...	0.40	0.42	0.39	36	54522	61	14	43	4	49
ASE_00328	RNaseP_bact_b links to Rfam database...	0.59	0.55	0.63	62	72672	45	3	34	8	50
ASE_00361	RNaseP_bact_a links to Rfam database...	0.49	0.47	0.51	60	75348	61	11	47	3	67
ASE_00427	RNaseP_nuc links to Rfam database...	0.08	0.11	0.07	5	40680	84	23	47	14	41
ASE_00441	RNaseP_bact_a links to Rfam database...	0.68	0.63	0.74	71	64165	33	4	21	8	41
CRW_00548	5S_rRNA links to Rfam database...	0.85	0.82	0.89	31	7346	7	0	4	3	7
CRW_00552	5S_rRNA links to Rfam database...	0.95	0.90	1.00	35	7105	4	0	0	4	4
CRW_00555	5S_rRNA links to Rfam database...	0.71	0.65	0.79	26	7593	7	0	7	0	14
CRW_00567	5S_rRNA links to Rfam database...	0.74	0.75	0.73	30	7462	14	3	8	3	10
CRW_00570	5S_rRNA links to Rfam database...	0.76	0.76	0.76	28	6866	13	0	9	4	9
CRW_00573	5S_rRNA links to Rfam database...	0.25	0.25	0.26	10	7101	29	1	28	0	30
CRW_01484	5S_rRNA links to Rfam database...	0.28	0.26	0.31	10	7471	24	1	21	2	29
CRW_01485	5S_rRNA links to Rfam database...	0.47	0.44	0.52	17	7470	17	2	14	1	22
CRW_01487	5S_rRNA links to Rfam database...	0.31	0.29	0.33	12	7467	24	3	21	0	29
CRW_01489	5S_rRNA links to Rfam database...	0.85	0.79	0.91	31	7469	5	0	3	2	8
CRW_01491	5S_rRNA links to Rfam database...	0.53	0.47	0.61	20	8352	15	2	11	2	23
CRW_01492	5S_rRNA links to Rfam database...	0.77	0.74	0.82	31	7588	11	0	7	4	11
CRW_01494	5S_rRNA links to Rfam database...	0.70	0.68	0.73	27	7103	11	0	10	1	13
CRW_01497	5S_rRNA links to Rfam database...	0.88	0.83	0.94	33	7105	3	0	2	1	7
CRW_01498	5S_rRNA links to Rfam database...	0.93	0.88	0.97	38	8089	2	0	1	1	5
CRW_01499	5S_rRNA links to Rfam database...	0.50	0.49	0.53	20	7963	19	3	15	1	21
CRW_01500	5S_rRNA links to Rfam database...	0.89	0.84	0.94	32	7716	7	0	2	5	6
CRW_01501	5S_rRNA links to Rfam database...	0.81	0.78	0.85	35	8474	9	0	6	3	10
CRW_01508	5S_rRNA links to Rfam database...	0.83	0.79	0.87	33	7963	10	0	5	5	9
CRW_01532	5S_rRNA links to Rfam database...	0.75	0.73	0.77	27	7105	13	0	8	5	10
CRW_01533	5S_rRNA links to Rfam database...	0.82	0.78	0.85	29	7106	10	0	5	5	8
CRW_01534	5S_rRNA links to Rfam database...	0.79	0.78	0.81	29	7104	11	0	7	4	8
CRW_01535	5S_rRNA links to Rfam database...	0.93	0.86	1.00	32	7108	3	0	0	3	5
CRW_01536	5S_rRNA links to Rfam database...	0.62	0.59	0.65	22	6987	12	1	11	0	15
CRW_01537	5S_rRNA links to Rfam database...	0.60	0.54	0.67	20	7110	15	0	10	5	17
CRW_01539	5S_rRNA links to Rfam database...	0.80	0.76	0.85	28	7107	10	0	5	5	9
CRW_01540	5S_rRNA links to Rfam database...	0.75	0.73	0.77	27	7105	11	0	8	3	10
CRW_01541	5S_rRNA links to Rfam database...	0.87	0.84	0.91	31	7106	5	0	3	2	6
CRW_01542	5S_rRNA links to Rfam database...	0.97	0.95	1.00	35	7105	3	0	0	3	2
CRW_01544	5S_rRNA links to Rfam database...	0.86	0.84	0.89	31	7105	4	0	4	0	6
CRW_01548	5S_rRNA links to Rfam database...	0.74	0.70	0.79	26	6988	11	0	7	4	11
CRW_01555	5S_rRNA links to Rfam database...	0.75	0.70	0.81	26	9013	9	0	6	3	11
CRW_01556	5S_rRNA links to Rfam database...	0.72	0.70	0.74	26	7105	12	0	9	3	11
CRW_01557	5S_rRNA links to Rfam database...	0.94	0.89	1.00	33	7107	3	0	0	3	4
CRW_01559	5S_rRNA links to Rfam database...	0.79	0.78	0.81	29	7224	12	0	7	5	8
CRW_01562	5S_rRNA links to Rfam database...	0.68	0.65	0.71	24	7106	13	1	9	3	13
CRW_01563	5S_rRNA links to Rfam database...	0.84	0.78	0.91	29	6871	3	0	3	0	8
CRW_01566	5S_rRNA links to Rfam database...	0.49	0.46	0.53	17	7108	16	4	11	1	20
CRW_01568	5S_rRNA links to Rfam database...	0.79	0.78	0.81	29	7104	11	0	7	4	8
CRW_01569	5S_rRNA links to Rfam database...	0.74	0.73	0.75	27	7104	13	0	9	4	10
CRW_01570	5S_rRNA links to Rfam database...	0.78	0.73	0.84	27	7108	11	0	5	6	10
CRW_01572	5S_rRNA links to Rfam database...	0.33	0.30	0.38	11	6992	18	4	14	0	26
CRW_01573	5S_rRNA links to Rfam database...	0.83	0.78	0.88	29	7227	7	0	4	3	8
CRW_01578	5S_rRNA links to Rfam database...	0.94	0.89	1.00	33	7107	3	0	0	3	4
CRW_01580	5S_rRNA links to Rfam database...	0.90	0.86	0.94	32	7106	5	0	2	3	5
CRW_01581	5S_rRNA links to Rfam database...	0.29	0.27	0.32	10	7109	22	0	21	1	27
CRW_01583	5S_rRNA links to Rfam database...	0.78	0.73	0.84	27	7108	9	0	5	4	10
CRW_01584	5S_rRNA links to Rfam database...	0.90	0.89	0.92	33	7104	6	0	3	3	4
CRW_01590	5S_rRNA links to Rfam database...	0.24	0.24	0.24	9	7103	28	4	24	0	28
CRW_01593	5S_rRNA links to Rfam database...	0.79	0.78	0.81	29	7104	11	0	7	4	8
CRW_01595	5S_rRNA links to Rfam database...	0.72	0.70	0.74	26	8480	14	0	9	5	11
CRW_01599	5S_rRNA links to Rfam database...	0.24	0.24	0.24	9	7102	29	5	24	0	28
CRW_01603	5S_rRNA links to Rfam database...	0.84	0.78	0.91	29	7108	5	0	3	2	8
CRW_01605	5S_rRNA links to Rfam database...	0.83	0.76	0.90	28	7109	7	0	3	4	9
CRW_01606	5S_rRNA links to Rfam database...	0.63	0.57	0.70	21	7110	12	0	9	3	16
CRW_01608	5S_rRNA links to Rfam database...	0.70	0.65	0.75	24	8353	10	1	7	2	13
CRW_01616	5S_rRNA links to Rfam database...	0.79	0.78	0.81	29	7104	12	0	7	5	8
CRW_01617	5S_rRNA links to Rfam database...	0.92	0.89	0.94	33	7105	5	0	2	3	4
CRW_01620	5S_rRNA links to Rfam database...	0.89	0.89	0.89	33	6984	6	0	4	2	4
CRW_01621	5S_rRNA links to Rfam database...	0.61	0.59	0.63	22	7105	15	0	13	2	15
CRW_01623	5S_rRNA links to Rfam database...	0.86	0.78	0.94	29	7109	3	0	2	1	8
CRW_01625	5S_rRNA links to Rfam database...	0.88	0.86	0.89	32	7104	6	0	4	2	5
PDB_00012	mir-TAR links to Rfam database...	1.00	1.00	1.00	7	399	3	0	0	3	0
PDB_00070	tRNA links to Rfam database...	0.68	0.67	0.70	16	2827	7	1	6	0	8
PDB_00213	Gammaretro_CES links to Rfam database...	0.92	0.85	1.00	35	5015	0	0	0	0	6
PDB_00229	tRNA links to Rfam database...	0.44	0.43	0.45	10	2753	12	3	9	0	13
PDB_00327	tRNA links to Rfam database...	0.56	0.52	0.60	12	3061	8	0	8	0	11
PDB_00362	tRNA links to Rfam database...	0.98	0.95	1.00	21	2829	0	0	0	0	1
PDB_00402	tRNA links to Rfam database...	0.27	0.30	0.26	7	2748	20	2	18	0	16
PDB_00431	tRNA links to Rfam database...	-0.01	0.00	0.00	0	2195	16	0	16	0	20
PDB_00474	tRNA links to Rfam database...	0.96	0.91	1.00	21	2680	2	0	0	2	2
PDB_00553	mir-TAR links to Rfam database...	1.00	1.00	1.00	11	454	0	0	0	0	0
PDB_00571	tRNA links to Rfam database...	0.17	0.16	0.19	4	3300	17	6	11	0	21
PDB_00667	tRNA links to Rfam database...	0.71	0.68	0.75	15	2830	7	4	1	2	7
PDB_00741	Entero_5_CRE links to Rfam database...	0.87	0.76	1.00	13	690	0	0	0	0	4
PDB_00810	s2m links to Rfam database...	0.91	0.82	1.00	14	1067	0	0	0	0	3
PDB_00828	Purine links to Rfam database...	0.88	0.78	1.00	21	2464	0	0	0	0	6
PDB_00829	Purine links to Rfam database...	0.86	0.75	1.00	18	2260	0	0	0	0	6
PDB_00876	HIV_FE links to Rfam database...	0.97	0.95	1.00	19	971	0	0	0	0	1
PDB_01002	tRNA links to Rfam database...	0.95	0.90	1.00	19	2756	2	0	0	2	2
PDB_01020	Purine links to Rfam database...	0.86	0.74	1.00	17	2261	1	0	0	1	6
PDB_01050	UnaL2 links to Rfam database...	0.92	0.85	1.00	11	619	2	0	0	2	2
PDB_01053	tRNA links to Rfam database...	1.00	1.00	1.00	16	1362	0	0	0	0	0
PDB_01073	SAM links to Rfam database...	0.52	0.47	0.57	16	4343	13	2	10	1	18
PDB_01114	TPP links to Rfam database...	0.44	0.37	0.53	10	2831	9	0	9	0	17
PDB_01152	HIV_FS2 links to Rfam database...	0.96	0.93	1.00	13	548	0	0	0	0	1
PDB_01236	ykoK links to Rfam database...	0.60	0.56	0.65	30	11582	17	0	16	1	24
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_00396	Hammerhead_3 links to Rfam database...	0.97	0.93	1.00	14	1417	2	0	0	2	1
RFA_00402	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1416	0	0	0	0	0
RFA_00409	Hammerhead_3 links to Rfam database...	0.55	0.53	0.57	8	1417	7	1	5	1	7
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_00444	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1525	1	0	0	1	0
RFA_00583	Y_RNA links to Rfam database...	0.51	0.53	0.50	8	4934	22	0	8	14	7
RFA_00584	Y_RNA links to Rfam database...	0.87	0.87	0.87	13	2911	16	0	2	14	2
RFA_00585	Y_RNA links to Rfam database...	1.00	1.00	1.00	15	4836	14	0	0	14	0
RFA_00586	Y_RNA links to Rfam database...	0.89	0.80	1.00	12	3904	11	0	0	11	3
RFA_00587	Y_RNA links to Rfam database...	1.00	1.00	1.00	15	4836	12	0	0	12	0
RFA_00588	Y_RNA links to Rfam database...	0.93	0.87	1.00	13	4547	12	0	0	12	2
RFA_00589	Y_RNA links to Rfam database...	1.00	1.00	1.00	15	4356	16	0	0	16	0
RFA_00594	Y_RNA links to Rfam database...	0.97	0.93	1.00	14	2761	11	0	0	11	1
RFA_00596	Y_RNA links to Rfam database...	0.00	0.00	0.00	0	5981	23	4	10	9	15
RFA_00658	Hammerhead_1 links to Rfam database...	0.59	0.50	0.70	7	1118	5	0	3	2	7
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...	0.29	0.29	0.31	4	977	10	1	8	1	10
RFA_00668	Hammerhead_1 links to Rfam database...	0.41	0.43	0.40	6	975	9	0	9	0	8
RFA_00672	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	895	9	0	8	1	13
RFA_00673	Hammerhead_1 links to Rfam database...	0.42	0.36	0.50	5	1118	6	0	5	1	9
RFA_00674	Hammerhead_1 links to Rfam database...	0.74	0.71	0.77	10	1115	4	0	3	1	4
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...	0.42	0.43	0.43	6	976	9	0	8	1	8
RFA_00678	Hammerhead_1 links to Rfam database...	0.43	0.29	0.67	4	940	2	0	2	0	10
RFA_00680	Hammerhead_1 links to Rfam database...	0.74	0.71	0.77	10	1115	6	0	3	3	4
RFA_00704	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	983	8	0	7	1	14
RFA_00707	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	1026	9	3	6	0	14
RFA_00715	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...	0.66	0.64	0.69	9	890	4	0	4	0	5
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...	0.69	0.67	0.73	8	892	4	1	2	1	4
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...	0.69	0.67	0.73	8	892	4	1	2	1	4
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...	0.69	0.67	0.73	8	892	4	1	2	1	4
RFA_00758	s2m links to Rfam database...	0.96	0.92	1.00	11	892	0	0	0	0	1
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...	1.00	1.00	1.00	12	891	0	0	0	0	0
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...	1.00	1.00	1.00	12	891	1	0	0	1	0
RFA_00786	Gammaretro_CES links to Rfam database...	0.23	0.22	0.26	7	5023	20	1	19	0	25
RFA_00791	Gammaretro_CES links to Rfam database...	0.46	0.47	0.45	15	5118	18	6	12	0	17
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...	0.85	0.81	0.90	26	5021	4	0	3	1	6
SPR_00007	tRNA links to Rfam database...	0.98	0.95	1.00	20	2830	0	0	0	0	1
SPR_00009	tRNA links to Rfam database...	0.97	0.95	1.00	19	2831	0	0	0	0	1
SPR_00010	tRNA links to Rfam database...	0.48	0.48	0.50	10	2830	10	2	8	0	11
SPR_00012	tRNA links to Rfam database...	0.24	0.25	0.24	5	2829	16	2	14	0	15
SPR_00013	tRNA links to Rfam database...	0.97	0.95	1.00	19	2831	0	0	0	0	1
SPR_00016	tRNA links to Rfam database...	0.98	0.95	1.00	20	2830	0	0	0	0	1
SPR_00017	tRNA links to Rfam database...	0.98	0.95	1.00	20	2830	0	0	0	0	1
SPR_00025	tRNA links to Rfam database...	0.34	0.35	0.33	7	2905	15	4	10	1	13
SPR_00026	tRNA links to Rfam database...	0.60	0.57	0.63	12	2907	8	0	7	1	9
SPR_00027	tRNA links to Rfam database...	0.38	0.38	0.38	8	2905	14	0	13	1	13
SPR_00036	tRNA links to Rfam database...	0.84	0.80	0.89	16	2757	3	0	2	1	4
SPR_00045	tRNA links to Rfam database...	0.79	0.77	0.81	17	2829	4	0	4	0	5
SPR_00064	tRNA links to Rfam database...	0.54	0.57	0.52	12	2827	11	2	9	0	9
SPR_00065	tRNA links to Rfam database...	0.50	0.52	0.48	11	2827	12	4	8	0	10
SPR_00066	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00068	tRNA links to Rfam database...	0.55	0.52	0.58	11	2831	8	3	5	0	10
SPR_00070	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00074	tRNA links to Rfam database...	0.52	0.55	0.50	11	2828	12	2	9	1	9
SPR_00079	tRNA links to Rfam database...	1.00	1.00	1.00	19	2466	1	0	0	1	0
SPR_00086	tRNA links to Rfam database...	0.30	0.33	0.28	7	2825	18	5	13	0	14
SPR_00087	tRNA links to Rfam database...	0.42	0.45	0.41	9	2828	13	4	9	0	11
SPR_00088	tRNA links to Rfam database...	0.42	0.45	0.41	9	2828	13	4	9	0	11
SPR_00089	tRNA links to Rfam database...	0.42	0.45	0.41	9	2828	13	4	9	0	11
SPR_00090	tRNA links to Rfam database...	0.18	0.20	0.17	4	2827	19	4	15	0	16
SPR_00091	tRNA links to Rfam database...	0.42	0.45	0.41	9	2828	13	4	9	0	11
SPR_00095	tRNA links to Rfam database...	0.52	0.52	0.52	11	2829	10	2	8	0	10
SPR_00111	tRNA links to Rfam database...	0.57	0.57	0.57	12	2680	9	1	8	0	9
SPR_00112	tRNA links to Rfam database...	0.78	0.76	0.80	16	2681	6	3	1	2	5
SPR_00115	tRNA links to Rfam database...	0.85	0.81	0.89	17	2682	2	0	2	0	4
SPR_00117	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	2	0	0	2	0
SPR_00139	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	1	0	0	1	0
SPR_00153	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	0	0	0	0	0
SPR_00155	tRNA links to Rfam database...	0.49	0.52	0.46	11	2902	13	3	10	0	10
SPR_00156	tRNA links to Rfam database...	0.48	0.52	0.44	11	2901	14	5	9	0	10
SPR_00176	tRNA links to Rfam database...	0.51	0.55	0.48	11	2827	13	2	10	1	9
SPR_00177	tRNA links to Rfam database...	0.48	0.52	0.44	11	2825	14	2	12	0	10
SPR_00178	tRNA links to Rfam database...	0.70	0.71	0.68	15	2828	7	3	4	0	6
SPR_00191	tRNA links to Rfam database...	0.18	0.19	0.19	4	2829	17	4	13	0	17
SPR_00200	tRNA links to Rfam database...	0.53	0.52	0.55	11	2830	10	3	6	1	10
SPR_00224	tRNA links to Rfam database...	0.47	0.50	0.45	10	3719	17	5	7	5	10
SPR_00271	tRNA links to Rfam database...	0.52	0.57	0.48	12	2825	13	3	10	0	9
SPR_00273	tRNA links to Rfam database...	0.30	0.33	0.28	7	2825	19	2	16	1	14
SPR_00276	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	0	0	0	0	0
SPR_00277	tRNA links to Rfam database...	0.98	0.95	1.00	20	2906	0	0	0	0	1
SPR_00294	tRNA links to Rfam database...	0.55	0.57	0.55	12	2828	10	3	7	0	9
SPR_00295	tRNA links to Rfam database...	0.95	0.95	0.95	20	2754	2	0	1	1	1
SPR_00314	tRNA links to Rfam database...	0.68	0.71	0.65	15	2903	11	0	8	3	6
SPR_00315	tRNA links to Rfam database...	0.74	0.81	0.68	17	2901	10	0	8	2	4
SPR_00317	tRNA links to Rfam database...	0.53	0.60	0.48	12	2901	13	7	6	0	8
SPR_00318	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	4	0	0	4	0
SPR_00321	tRNA links to Rfam database...	1.00	1.00	1.00	21	2982	0	0	0	0	0
SPR_00333	tRNA links to Rfam database...	0.45	0.48	0.43	10	2752	13	5	8	0	11
SPR_00352	tRNA links to Rfam database...	0.74	0.76	0.73	16	2904	6	3	3	0	5
SPR_00353	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00357	tRNA links to Rfam database...	0.98	0.95	1.00	20	2906	0	0	0	0	1
SPR_00358	tRNA links to Rfam database...	0.31	0.35	0.29	7	2902	17	5	12	0	13
SPR_00370	tRNA links to Rfam database...	0.23	0.24	0.23	5	2753	17	3	14	0	16
SPR_00386	tRNA links to Rfam database...	0.32	0.35	0.30	7	4163	21	6	10	5	13
SPR_00414	tRNA links to Rfam database...	0.44	0.48	0.42	10	3546	18	5	9	4	11
SPR_00415	tRNA links to Rfam database...	0.78	0.86	0.72	18	3545	7	5	2	0	3
SPR_00417	tRNA links to Rfam database...	0.29	0.32	0.28	7	3545	22	7	11	4	15
SPR_00418	tRNA links to Rfam database...	0.29	0.32	0.28	7	3545	22	7	11	4	15
SPR_00434	tRNA links to Rfam database...	0.27	0.29	0.27	6	2828	16	7	9	0	15
SPR_00435	tRNA links to Rfam database...	0.65	0.67	0.64	14	2828	8	0	8	0	7
SPR_00436	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	2	0	0	2	0
SPR_00437	tRNA links to Rfam database...	1.00	1.00	1.00	21	2754	2	0	0	2	0
SPR_00438	tRNA links to Rfam database...	1.00	1.00	1.00	21	2754	0	0	0	0	0
SPR_00452	tRNA links to Rfam database...	0.73	0.76	0.70	16	2827	7	3	4	0	5
SPR_00455	tRNA links to Rfam database...	0.28	0.29	0.29	6	2829	15	5	10	0	15
SPR_00456	tRNA links to Rfam database...	0.29	0.33	0.27	7	2824	19	2	17	0	14
SPR_00476	tRNA links to Rfam database...	0.52	0.57	0.48	12	2750	13	3	10	0	9
SPR_00479	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00482	tRNA links to Rfam database...	0.98	0.95	1.00	20	2681	0	0	0	0	1
SPR_00483	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00487	tRNA links to Rfam database...	-0.01	0.00	0.00	0	2683	18	0	18	0	22
SPR_00493	tRNA links to Rfam database...	0.30	0.32	0.29	7	2751	17	5	12	0	15
SPR_00496	tRNA links to Rfam database...	1.00	1.00	1.00	21	2754	0	0	0	0	0
SPR_00497	tRNA links to Rfam database...	0.52	0.57	0.48	12	2750	13	3	10	0	9
SPR_00502	tRNA links to Rfam database...	0.56	0.57	0.55	12	2904	10	2	8	0	9
SPR_00504	tRNA links to Rfam database...	1.00	1.00	1.00	20	2830	0	0	0	0	0
SPR_00505	tRNA links to Rfam database...	1.00	1.00	1.00	20	2906	2	0	0	2	0
SPR_00506	tRNA links to Rfam database...	1.00	1.00	1.00	20	2906	0	0	0	0	0
SPR_00509	tRNA links to Rfam database...	1.00	1.00	1.00	20	2906	2	0	0	2	0
SPR_00512	tRNA links to Rfam database...	1.00	1.00	1.00	20	2906	2	0	0	2	0
SPR_00513	tRNA links to Rfam database...	1.00	1.00	1.00	20	2906	0	0	0	0	0
SPR_00518	tRNA links to Rfam database...	0.56	0.55	0.58	11	2907	8	1	7	0	9
SPR_00548	tRNA links to Rfam database...	0.53	0.57	0.50	12	3379	12	0	12	0	9
SPR_00561	tRNA links to Rfam database...	0.40	0.43	0.39	9	2827	14	1	13	0	12
SPR_00590	tRNA links to Rfam database...	0.34	0.35	0.33	7	2982	14	2	12	0	13
SPR_00593	tRNA links to Rfam database...	0.51	0.53	0.50	10	2755	10	4	6	0	9
SPR_00595	tRNA links to Rfam database...	0.55	0.57	0.55	12	2753	10	2	8	0	9
SPR_00598	tRNA links to Rfam database...	0.54	0.57	0.52	12	2980	12	2	9	1	9
SPR_00610	tRNA links to Rfam database...	0.87	0.81	0.94	17	2538	2	0	1	1	4
SPR_00620	tRNA links to Rfam database...	0.52	0.57	0.48	12	2978	14	5	8	1	9
SPR_00721	tRNA links to Rfam database...	0.48	0.52	0.44	11	2901	14	3	11	0	10
SPR_00722	tRNA links to Rfam database...	0.76	0.80	0.73	16	2904	6	4	2	0	4
SPR_00758	tRNA links to Rfam database...	0.29	0.33	0.27	7	2977	20	7	12	1	14
SPR_00760	tRNA links to Rfam database...	0.60	0.67	0.54	14	3544	14	5	7	2	7
SPR_00777	tRNA links to Rfam database...	0.51	0.55	0.48	11	2605	12	5	7	0	9
SPR_00867	tRNA links to Rfam database...	0.49	0.52	0.46	11	2902	15	4	9	2	10
SPR_00868	tRNA links to Rfam database...	0.83	0.81	0.85	17	2906	4	0	3	1	4
SPR_00943	tRNA links to Rfam database...	0.83	0.85	0.81	17	2535	4	1	3	0	3
SPR_00957	tRNA links to Rfam database...	0.78	0.76	0.80	16	2983	5	0	4	1	5
SPR_01040	tRNA links to Rfam database...	0.83	0.81	0.85	17	2755	4	0	3	1	4
SPR_01088	tRNA links to Rfam database...	0.50	0.52	0.48	11	2903	14	2	10	2	10
SPR_01095	tRNA links to Rfam database...	0.76	0.76	0.76	16	2829	6	0	5	1	5
SPR_01106	tRNA links to Rfam database...	0.98	0.95	1.00	20	2536	2	0	0	2	1
SPR_01117	tRNA links to Rfam database...	0.30	0.33	0.28	7	2978	18	2	16	0	14
SPR_01157	tRNA links to Rfam database...	0.73	0.76	0.70	16	2752	8	0	7	1	5
SRP_00006	Metazoa_SRP links to Rfam database...	0.91	0.89	0.94	90	45657	11	0	6	5	11
SRP_00008	Bacteria_small_SRP links to Rfam database...	1.00	1.00	1.00	25	2901	0	0	0	0	0
SRP_00011	Plant_SRP links to Rfam database...	0.47	0.44	0.50	46	46268	48	3	43	2	58
SRP_00015	Plant_SRP links to Rfam database...	0.78	0.74	0.82	73	46271	22	3	13	6	26
SRP_00020	Bacteria_small_SRP links to Rfam database...	0.86	0.88	0.85	29	5531	5	1	4	0	4
SRP_00024	Bacteria_large_SRP links to Rfam database...	0.66	0.67	0.65	58	37586	31	6	25	0	29
SRP_00026	Bacteria_large_SRP links to Rfam database...	0.59	0.60	0.58	53	36765	44	5	33	6	35
SRP_00030	Bacteria_large_SRP links to Rfam database...	0.68	0.68	0.68	60	36768	30	3	25	2	28
SRP_00031	Bacteria_large_SRP links to Rfam database...	0.61	0.63	0.60	56	36222	41	5	32	4	33
SRP_00037	Bacteria_large_SRP links to Rfam database...	0.57	0.56	0.57	49	36499	39	5	32	2	38
SRP_00038	Bacteria_small_SRP links to Rfam database...	0.94	0.94	0.94	31	5017	2	0	2	0	2
SRP_00042	Bacteria_small_SRP links to Rfam database...	0.46	0.48	0.44	12	3978	17	1	14	2	13
SRP_00044	Bacteria_small_SRP links to Rfam database...	0.71	0.69	0.73	22	6075	12	1	7	4	10
SRP_00046	Bacteria_small_SRP links to Rfam database...	0.97	0.97	0.97	31	4721	2	0	1	1	1
SRP_00050	Metazoa_SRP links to Rfam database...	0.84	0.80	0.88	79	44760	11	0	11	0	20
SRP_00051	Bacteria_small_SRP links to Rfam database...	0.93	0.90	0.96	27	5432	3	0	1	2	3
SRP_00054	Bacteria_small_SRP links to Rfam database...	-0.01	0.00	0.00	0	5533	32	3	29	0	32
SRP_00057	Bacteria_small_SRP links to Rfam database...	0.83	0.83	0.83	29	6293	7	1	5	1	6
SRP_00058	Bacteria_small_SRP links to Rfam database...	0.87	0.88	0.86	30	5743	9	1	4	4	4
SRP_00066	Metazoa_SRP links to Rfam database...	0.06	0.06	0.06	6	45357	88	10	78	0	94
SRP_00074	Bacteria_small_SRP links to Rfam database...	0.39	0.41	0.36	12	6522	24	3	18	3	17
SRP_00075	Bacteria_small_SRP links to Rfam database...	0.85	0.85	0.85	29	5531	8	0	5	3	5
SRP_00077	Bacteria_small_SRP links to Rfam database...	0.23	0.24	0.23	9	6630	31	4	27	0	28
SRP_00084	Bacteria_small_SRP links to Rfam database...	0.87	0.88	0.86	30	5425	5	1	4	0	4
SRP_00086	Metazoa_SRP links to Rfam database...	0.76	0.75	0.77	75	44155	25	2	21	2	25
SRP_00088	Bacteria_large_SRP links to Rfam database...	0.65	0.65	0.64	58	34101	32	4	28	0	31
SRP_00089	Bacteria_large_SRP links to Rfam database...	0.64	0.63	0.66	57	35691	30	3	27	0	33
SRP_00090	Bacteria_large_SRP links to Rfam database...	0.64	0.62	0.66	56	35426	32	5	24	3	34
SRP_00094	Bacteria_small_SRP links to Rfam database...	0.84	0.88	0.81	21	4069	5	1	4	0	3
SRP_00095	Bacteria_small_SRP links to Rfam database...	0.85	0.88	0.81	22	3978	5	1	4	0	3
SRP_00098	Bacteria_small_SRP links to Rfam database...	0.66	0.68	0.66	25	6403	16	1	12	3	12
SRP_00102	Metazoa_SRP links to Rfam database...	0.61	0.59	0.64	60	44457	34	4	30	0	41
SRP_00103	Metazoa_SRP links to Rfam database...	0.15	0.15	0.16	15	45355	81	6	75	0	87
SRP_00105	Bacteria_small_SRP links to Rfam database...	0.78	0.79	0.77	27	5530	10	1	7	2	7
SRP_00107	Bacteria_small_SRP links to Rfam database...	0.12	0.16	0.10	3	3626	29	7	19	3	16
SRP_00121	Bacteria_small_SRP links to Rfam database...	0.80	0.80	0.80	20	4253	6	0	5	1	5
SRP_00128	Bacteria_small_SRP links to Rfam database...	0.75	0.78	0.72	28	6747	11	1	10	0	8
SRP_00132	Bacteria_small_SRP links to Rfam database...	0.65	0.69	0.63	20	4819	15	0	12	3	9
SRP_00134	Bacteria_large_SRP links to Rfam database...	0.51	0.55	0.48	16	5962	23	3	14	6	13
SRP_00141	Bacteria_small_SRP links to Rfam database...	0.89	0.88	0.90	36	6288	5	1	3	1	5
SRP_00152	Plant_SRP links to Rfam database...	0.36	0.35	0.38	36	45658	60	5	54	1	67
SRP_00161	Bacteria_small_SRP links to Rfam database...	0.86	0.86	0.86	19	2828	3	0	3	0	3
SRP_00162	Bacteria_small_SRP links to Rfam database...	0.89	0.91	0.88	21	2902	4	0	3	1	2
SRP_00163	Bacteria_small_SRP links to Rfam database...	0.76	0.81	0.72	21	3457	8	2	6	0	5
SRP_00164	Bacteria_small_SRP links to Rfam database...	0.80	0.80	0.80	28	6868	9	1	6	2	7
SRP_00170	Bacteria_small_SRP links to Rfam database...	0.59	0.60	0.58	15	4069	12	0	11	1	10
SRP_00171	Metazoa_SRP links to Rfam database...	0.00	0.00	0.00	0	45358	93	15	78	0	88
SRP_00178	Plant_SRP links to Rfam database...	0.74	0.71	0.78	72	45661	23	2	18	3	30
SRP_00179	Plant_SRP links to Rfam database...	0.79	0.75	0.84	79	45962	19	1	14	4	26
SRP_00181	Plant_SRP links to Rfam database...	0.27	0.25	0.30	26	45968	62	2	60	0	76
SRP_00182	Plant_SRP links to Rfam database...	0.59	0.56	0.61	57	45963	37	5	31	1	44
SRP_00188	Plant_SRP links to Rfam database...	0.20	0.20	0.21	16	31048	61	8	53	0	63
SRP_00194	Bacteria_small_SRP links to Rfam database...	0.77	0.81	0.74	17	3217	6	0	6	0	4
SRP_00200	Bacteria_small_SRP links to Rfam database...	0.66	0.67	0.65	24	6866	15	1	12	2	12
SRP_00209	Bacteria_small_SRP links to Rfam database...	0.80	0.81	0.79	22	4628	6	0	6	0	5
SRP_00213	Bacteria_small_SRP links to Rfam database...	0.36	0.40	0.33	10	4156	20	5	15	0	15
SRP_00215	Bacteria_small_SRP links to Rfam database...	0.82	0.80	0.83	20	3216	4	0	4	0	5
SRP_00227	Bacteria_small_SRP links to Rfam database...	0.95	0.97	0.94	30	5119	2	1	1	0	1
SRP_00228	Metazoa_SRP links to Rfam database...	0.81	0.79	0.82	75	45360	23	0	16	7	20
SRP_00231	Bacteria_small_SRP links to Rfam database...	0.87	0.88	0.86	30	5425	5	1	4	0	4
SRP_00233	Bacteria_small_SRP links to Rfam database...	0.83	0.82	0.84	27	5119	5	0	5	0	6
SRP_00234	Bacteria_large_SRP links to Rfam database...	0.66	0.64	0.68	55	36234	33	2	24	7	31
SRP_00243	Bacteria_small_SRP links to Rfam database...	0.97	0.94	1.00	29	5122	1	0	0	1	2
SRP_00244	Bacteria_small_SRP links to Rfam database...	0.52	0.51	0.53	20	6865	18	3	15	0	19
SRP_00250	Bacteria_small_SRP links to Rfam database...	0.78	0.81	0.76	29	6748	11	1	8	2	7
SRP_00251	Bacteria_small_SRP links to Rfam database...	0.75	0.78	0.72	28	6982	11	1	10	0	8
SRP_00266	Bacteria_small_SRP links to Rfam database...	0.72	0.72	0.72	21	4627	9	1	7	1	8
SRP_00268	Bacteria_small_SRP links to Rfam database...	0.93	0.93	0.93	25	4159	2	1	1	0	2
SRP_00269	Bacteria_small_SRP links to Rfam database...	0.43	0.42	0.44	14	5018	18	3	15	0	19
SRP_00270	Bacteria_small_SRP links to Rfam database...	0.43	0.45	0.41	14	4622	20	2	18	0	17
SRP_00271	Bacteria_small_SRP links to Rfam database...	-0.01	0.00	0.00	0	3215	25	3	22	0	24
SRP_00273	Bacteria_small_SRP links to Rfam database...	0.79	0.80	0.78	32	6745	10	1	8	1	8
SRP_00274	Bacteria_small_SRP links to Rfam database...	0.73	0.74	0.72	28	6864	11	1	10	0	10
SRP_00295	Bacteria_small_SRP links to Rfam database...	0.96	0.97	0.95	37	6864	3	1	1	1	1
SRP_00303	Bacteria_small_SRP links to Rfam database...	0.69	0.72	0.66	23	6635	12	1	11	0	9
SRP_00308	Bacteria_large_SRP links to Rfam database...	0.57	0.56	0.58	49	36231	37	3	32	2	39
SRP_00312	Bacteria_small_SRP links to Rfam database...	0.34	0.37	0.32	10	4155	21	5	16	0	17
SRP_00315	Bacteria_small_SRP links to Rfam database...	0.87	0.87	0.87	20	2903	3	0	3	0	3
SRP_00317	Metazoa_SRP links to Rfam database...	0.78	0.74	0.82	73	45061	19	1	15	3	25
SRP_00318	Bacteria_small_SRP links to Rfam database...	0.87	0.87	0.87	20	2980	3	0	3	0	3
SRP_00325	Bacteria_small_SRP links to Rfam database...	1.00	1.00	1.00	33	4338	0	0	0	0	0
SRP_00326	Bacteria_small_SRP links to Rfam database...	0.58	0.58	0.58	18	5019	13	3	10	0	13
SRP_00333	Bacteria_small_SRP links to Rfam database...	0.86	0.85	0.88	29	5118	4	0	4	0	5
SRP_00335	Bacteria_large_SRP links to Rfam database...	0.31	0.44	0.22	17	35167	73	31	30	12	22
SRP_00337	Bacteria_large_SRP links to Rfam database...	0.69	0.66	0.71	60	35427	26	1	23	2	31
SRP_00338	Bacteria_small_SRP links to Rfam database...	0.97	0.97	0.97	35	5424	1	0	1	0	1
SRP_00341	Bacteria_small_SRP links to Rfam database...	0.74	0.74	0.74	23	4722	8	0	8	0	8
SRP_00347	Metazoa_SRP links to Rfam database...	0.67	0.66	0.68	63	46572	35	5	25	5	33
SRP_00350	Bacteria_small_SRP links to Rfam database...	0.34	0.33	0.36	9	3891	16	2	14	0	18
SRP_00356	Bacteria_small_SRP links to Rfam database...	0.45	0.43	0.48	13	5023	14	4	10	0	17
SRP_00357	Bacteria_small_SRP links to Rfam database...	0.96	0.97	0.95	35	5319	2	1	1	0	1
SRP_00358	Bacteria_small_SRP links to Rfam database...	0.96	0.97	0.94	34	6292	2	1	1	0	1
SRP_00367	Bacteria_small_SRP links to Rfam database...	0.83	0.86	0.81	30	6749	7	1	6	0	5
SRP_00368	Metazoa_SRP links to Rfam database...	0.83	0.81	0.85	79	43863	17	1	13	3	19
SRP_00369	Bacteria_small_SRP links to Rfam database...	0.87	0.89	0.86	31	5742	7	1	4	2	4
SRP_00383	Bacteria_small_SRP links to Rfam database...	0.20	0.21	0.20	5	3215	20	4	16	0	19
TMR_00017	tmRNA links to Rfam database...	0.22	0.22	0.22	22	67063	80	10	66	4	80
TMR_00018	tmRNA links to Rfam database...	0.23	0.24	0.23	22	64523	79	15	60	4	70
TMR_00042	tmRNA links to Rfam database...	0.18	0.17	0.18	17	62741	80	9	68	3	81
TMR_00046	tmRNA links to Rfam database...	0.17	0.18	0.17	17	62734	85	11	73	1	79
TMR_00048	tmRNA links to Rfam database...	0.11	0.12	0.10	11	64874	99	16	79	4	84
TMR_00080	tmRNA links to Rfam database...	0.25	0.26	0.24	25	70396	79	25	54	0	71
TMR_00082	tmRNA links to Rfam database...	0.59	0.58	0.60	56	67802	43	12	26	5	40
TMR_00123	tmRNA links to Rfam database...	0.05	0.05	0.05	5	66332	97	16	77	4	96
TMR_00137	tmRNA links to Rfam database...	0.13	0.13	0.13	12	60979	88	20	64	4	77
TMR_00142	tmRNA links to Rfam database...	0.20	0.21	0.19	21	70764	98	14	77	7	81
TMR_00207	tmRNA links to Rfam database...	0.28	0.28	0.28	29	72287	79	12	62	5	74
TMR_00257	tmRNA links to Rfam database...	0.05	0.05	0.05	5	67067	93	9	80	4	93
TMR_00271	tmRNA links to Rfam database...	0.29	0.29	0.29	26	64172	67	12	51	4	65
TMR_00332	tmRNA links to Rfam database...	0.32	0.31	0.32	31	67065	67	7	58	2	68
TMR_00378	tmRNA links to Rfam database...	0.17	0.18	0.17	17	67797	93	8	74	11	80
TMR_00404	tmRNA links to Rfam database...	0.38	0.39	0.37	36	67431	75	11	50	14	56
TMR_00427	tmRNA links to Rfam database...	0.38	0.38	0.38	37	67431	65	13	47	5	60
TMR_00443	tmRNA links to Rfam database...	0.25	0.24	0.27	25	67068	75	11	57	7	79
TMR_00451	tmRNA links to Rfam database...	0.10	0.11	0.10	10	63444	92	18	74	0	79
TMR_00458	tmRNA links to Rfam database...	0.00	0.00	0.00	0	63450	104	13	83	8	93
TMR_00469	tmRNA links to Rfam database...	0.38	0.39	0.37	39	64514	71	18	49	4	61
TMR_00472	tmRNA links to Rfam database...	0.18	0.20	0.17	19	64510	95	14	77	4	78
TMR_00519	tmRNA links to Rfam database...	0.17	0.18	0.17	17	63088	95	18	67	10	78
TMR_00520	tmRNA links to Rfam database...	0.22	0.21	0.24	21	63101	78	8	60	10	78
TMR_00522	tmRNA links to Rfam database...	0.42	0.41	0.42	40	63095	64	8	47	9	57
TMR_00528	tmRNA links to Rfam database...	0.33	0.32	0.33	31	63097	72	14	48	10	66
TMR_00540	tmRNA links to Rfam database...	0.32	0.32	0.33	33	73435	74	4	64	6	71
TMR_00568	tmRNA links to Rfam database...	0.41	0.39	0.42	39	60634	59	7	46	6	60
TMR_00571	tmRNA links to Rfam database...	0.22	0.22	0.22	22	60624	87	13	67	7	77
TMR_00580	tmRNA links to Rfam database...	0.27	0.26	0.29	26	60635	70	14	51	5	74
TMR_00584	tmRNA links to Rfam database...	0.38	0.40	0.37	39	60969	74	8	59	7	58
TMR_00586	tmRNA links to Rfam database...	0.38	0.38	0.37	37	60976	69	12	50	7	60
TMR_00616	tmRNA links to Rfam database...	0.45	0.44	0.46	44	67065	58	11	41	6	55
TMR_00699	tmRNA links to Rfam database...	0.27	0.25	0.30	26	67073	66	7	55	4	76
TMR_00702	tmRNA links to Rfam database...	0.26	0.26	0.27	26	67063	77	11	61	5	74
TMR_00703	tmRNA links to Rfam database...	0.29	0.28	0.31	28	67437	67	14	49	4	71

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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 RNASampler(20) - scored higher in this pairwise comparison

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

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

Performance of RNAshapes - scored lower in this pairwise comparison

1. Total counts & total scores for RNAshapes

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