CompaRNA - on-line benchmarks of RNA structure prediction methods

Laboratory of Structural Bioinformatics @ Adam Mickiewicz University in Poznan

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Overview

Metric	RNASLOpt		Carnac(seed)
MCC	0.423	>	0.167
Average MCC ± 95% Confidence Intervals	0.418 ± 0.038	>	0.064 ± 0.037
Sensitivity	0.401	>	0.032
Positive Predictive Value	0.448	<	0.885
Total TP	4086	>	323
Total TN	5176122	<	5184870
Total FP	5360	>	74
Total FP CONTRA	751	>	3
Total FP INCONS	4276	>	39
Total FP COMP	333	>	32
Total FN	6091	<	9854
P-value	3.56938820447e-08

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Performance plots

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

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Performance of RNASLOpt - scored higher in this pairwise comparison

1. Total counts & total scores for RNASLOpt

Total Base Pair Counts
Total TP	4086
Total TN	5176122
Total FP	5360
Total FP CONTRA	751
Total FP INCONS	4276
Total FP COMP	333
Total FN	6091

Total Scores
MCC	0.423
Average MCC ± 95% Confidence Intervals	0.418 ± 0.038
Sensitivity	0.401
Positive Predictive Value	0.448
Nr of predictions	116

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2. Individual counts for RNASLOpt [ 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...	0.55	0.49	0.61	37	34130	30	3	21	6	38
ASE_00002	RNaseP_arch links to Rfam database...	0.64	0.58	0.71	42	35452	20	2	15	3	31
ASE_00009	RNaseP_arch links to Rfam database...	0.44	0.40	0.47	27	26049	30	3	27	0	40
ASE_00014	RNaseP_arch links to Rfam database...	0.59	0.54	0.64	57	54196	33	3	29	1	49
ASE_00116	RNaseP_arch links to Rfam database...	0.24	0.21	0.29	14	31577	35	3	32	0	52
ASE_00120	RNaseP_arch links to Rfam database...	0.68	0.63	0.75	59	46892	20	4	16	0	35
ASE_00121	RNaseP_arch links to Rfam database...	0.46	0.42	0.50	39	45072	39	6	33	0	53
ASE_00145	RNaseP_arch links to Rfam database...	0.45	0.40	0.51	44	70039	45	1	41	3	67
ASE_00154	RNaseP_arch links to Rfam database...	0.41	0.36	0.45	39	65255	48	3	44	1	68
ASE_00187	RNaseP_arch links to Rfam database...	0.46	0.43	0.50	49	68537	52	7	42	3	66
ASE_00191	RNaseP_arch links to Rfam database...	0.58	0.56	0.61	34	29590	26	1	21	4	27
ASE_00196	RNaseP_arch links to Rfam database...	0.41	0.37	0.46	28	31565	36	2	31	3	47
ASE_00205	RNaseP_arch links to Rfam database...	0.43	0.41	0.46	37	45975	47	6	38	3	53
ASE_00209	RNaseP_arch links to Rfam database...	0.50	0.42	0.59	37	43008	26	2	24	0	51
ASE_00210	RNaseP_arch links to Rfam database...	0.36	0.34	0.38	22	27203	38	4	32	2	43
ASE_00213	RNaseP_arch links to Rfam database...	0.21	0.18	0.24	12	27210	41	2	37	2	54
ASE_00346	RNaseP_arch links to Rfam database...	0.53	0.47	0.61	46	48129	32	3	27	2	51
ASE_00359	RNaseP_arch links to Rfam database...	0.51	0.46	0.57	37	42713	28	2	26	0	43
ASE_00360	RNaseP_arch links to Rfam database...	0.43	0.38	0.49	25	29352	26	7	19	0	40
ASE_00417	RNaseP_arch links to Rfam database...	0.43	0.41	0.45	41	54523	53	4	47	2	59
ASE_00418	RNaseP_arch links to Rfam database...	0.07	0.07	0.07	5	38710	68	4	62	2	70
CRW_00016	Intron_gpI links to Rfam database...	0.48	0.45	0.52	54	77317	58	5	45	8	66
CRW_00610	Intron_gpI links to Rfam database...	0.06	0.06	0.07	5	36246	64	9	55	0	76
CRW_00613	Intron_gpI links to Rfam database...	0.59	0.50	0.70	39	34924	24	1	16	7	39
CRW_00618	Intron_gpI links to Rfam database...	0.21	0.21	0.21	13	56218	62	6	43	13	48
CRW_00633	Intron_gpI links to Rfam database...	0.50	0.49	0.51	52	63444	52	5	45	2	54
CRW_00634	Intron_gpI links to Rfam database...	0.50	0.50	0.51	47	64527	48	11	35	2	47
CRW_00670	Intron_gpI links to Rfam database...	0.45	0.43	0.47	52	70015	58	8	50	0	68
CRW_00671	Intron_gpI links to Rfam database...	0.60	0.53	0.68	62	62744	32	2	27	3	55
CRW_00672	Intron_gpI links to Rfam database...	0.43	0.41	0.45	45	72291	57	6	48	3	66
CRW_00692	Intron_gpI links to Rfam database...	0.33	0.34	0.33	31	68540	77	20	44	13	59
PDB_00827	Intron_gpI links to Rfam database...	0.74	0.60	0.91	49	26974	7	0	5	2	32
RFA_00606	Telomerase-cil links to Rfam database...	0.18	0.18	0.18	7	21281	39	4	29	6	32
RFA_00620	Telomerase-cil links to Rfam database...	0.66	0.64	0.68	25	21908	22	2	10	10	14
RFA_00621	RNase_MRP links to Rfam database...	0.23	0.22	0.24	17	46288	66	6	49	11	59
RFA_00623	RNase_MRP links to Rfam database...	0.50	0.51	0.48	40	43873	51	6	37	8	38
RFA_00624	RNase_MRP links to Rfam database...	0.52	0.51	0.53	31	30077	30	4	23	3	30
RFA_00626	rne5 links to Rfam database...	0.68	0.64	0.72	56	56538	30	6	16	8	31
RFA_00627	rne5 links to Rfam database...	0.61	0.60	0.62	52	56869	41	11	21	9	35
RFA_00628	rne5 links to Rfam database...	0.89	0.84	0.95	72	57215	15	0	4	11	14
RFA_00630	rne5 links to Rfam database...	0.69	0.67	0.72	58	56872	32	5	18	9	29
RFA_00639	7SK links to Rfam database...	0.29	0.29	0.29	25	54528	67	12	50	5	62
RFA_00814	R2_retro_el links to Rfam database...	0.51	0.51	0.51	21	25159	29	9	11	9	20
RFA_00815	R2_retro_el links to Rfam database...	0.41	0.41	0.41	17	24490	31	1	23	7	24
RFA_00816	R2_retro_el links to Rfam database...	0.58	0.63	0.53	26	23171	26	13	10	3	15
RFA_00817	R2_retro_el links to Rfam database...	0.24	0.27	0.22	11	21896	42	12	26	4	30
RFA_00818	R2_retro_el links to Rfam database...	0.21	0.22	0.21	9	20258	39	14	20	5	32
RFA_00819	R2_retro_el links to Rfam database...	0.60	0.68	0.53	28	27913	34	16	9	9	13
SRP_00009	Plant_SRP links to Rfam database...	0.50	0.47	0.54	48	46576	41	6	35	0	54
SRP_00011	Plant_SRP links to Rfam database...	0.17	0.16	0.19	17	46271	72	8	64	0	87
SRP_00012	Plant_SRP links to Rfam database...	0.32	0.29	0.36	29	46279	52	1	51	0	72
SRP_00015	Plant_SRP links to Rfam database...	0.28	0.25	0.31	25	46279	57	7	49	1	74
SRP_00016	Archaea_SRP links to Rfam database...	0.74	0.71	0.77	77	47795	24	5	18	1	32
SRP_00018	Fungi_SRP links to Rfam database...	0.61	0.57	0.66	46	38433	28	2	22	4	35
SRP_00019	Fungi_SRP links to Rfam database...	0.19	0.16	0.22	15	35979	54	2	50	2	76
SRP_00069	Fungi_SRP links to Rfam database...	0.44	0.41	0.48	35	34380	38	6	32	0	50
SRP_00073	Fungi_SRP links to Rfam database...	0.43	0.42	0.43	30	38991	47	12	27	8	41
SRP_00079	Plant_SRP links to Rfam database...	0.62	0.57	0.68	50	41832	24	3	20	1	38
SRP_00085	Plant_SRP links to Rfam database...	0.55	0.50	0.60	51	45366	36	5	29	2	50
SRP_00087	Fungi_SRP links to Rfam database...	0.20	0.22	0.19	13	37332	62	23	33	6	45
SRP_00091	Fungi_SRP links to Rfam database...	0.71	0.68	0.75	65	52888	24	4	18	2	30
SRP_00099	Plant_SRP links to Rfam database...	0.43	0.41	0.44	39	44762	49	7	42	0	56
SRP_00104	Fungi_SRP links to Rfam database...	0.30	0.32	0.29	22	34376	58	6	49	3	47
SRP_00124	Metazoa_SRP links to Rfam database...	0.39	0.36	0.43	31	37056	41	8	33	0	54
SRP_00127	Fungi_SRP links to Rfam database...	0.39	0.38	0.41	45	72281	65	13	51	1	74
SRP_00130	Archaea_SRP links to Rfam database...	0.51	0.48	0.55	47	49684	44	5	34	5	50
SRP_00136	Fungi_SRP links to Rfam database...	0.29	0.31	0.27	22	44172	63	15	44	4	49
SRP_00142	Archaea_SRP links to Rfam database...	0.18	0.17	0.18	16	45968	72	8	64	0	77
SRP_00143	Archaea_SRP links to Rfam database...	0.65	0.62	0.68	63	49677	35	0	30	5	38
SRP_00144	Archaea_SRP links to Rfam database...	0.04	0.04	0.05	4	46578	83	17	66	0	90
SRP_00148	Fungi_SRP links to Rfam database...	0.24	0.23	0.25	20	50007	65	11	48	6	67
SRP_00152	Plant_SRP links to Rfam database...	0.23	0.21	0.26	22	45667	64	10	54	0	81
SRP_00153	Plant_SRP links to Rfam database...	0.33	0.29	0.38	31	46889	52	8	43	1	76
SRP_00157	Fungi_SRP links to Rfam database...	0.39	0.38	0.40	27	44186	48	15	25	8	45
SRP_00175	Fungi_SRP links to Rfam database...	0.11	0.11	0.11	9	44472	72	10	60	2	75
SRP_00178	Plant_SRP links to Rfam database...	0.11	0.10	0.12	10	45669	74	1	73	0	92
SRP_00179	Plant_SRP links to Rfam database...	0.65	0.59	0.72	62	45970	27	3	21	3	43
SRP_00181	Plant_SRP links to Rfam database...	0.08	0.07	0.09	7	45975	74	2	72	0	95
SRP_00182	Plant_SRP links to Rfam database...	0.54	0.51	0.57	52	45965	39	11	28	0	49
SRP_00184	Plant_SRP links to Rfam database...	0.04	0.04	0.05	4	45981	73	3	68	2	96
SRP_00188	Plant_SRP links to Rfam database...	0.18	0.18	0.20	14	31054	57	9	48	0	65
SRP_00197	Archaea_SRP links to Rfam database...	0.23	0.21	0.25	21	49370	64	9	55	0	80
SRP_00198	Archaea_SRP links to Rfam database...	0.41	0.38	0.45	39	50954	47	5	42	0	64
SRP_00199	Archaea_SRP links to Rfam database...	0.24	0.23	0.26	24	50949	67	3	64	0	81
SRP_00201	Archaea_SRP links to Rfam database...	0.73	0.72	0.74	80	47787	30	3	25	2	31
SRP_00202	Archaea_SRP links to Rfam database...	0.52	0.49	0.56	57	54184	44	6	38	0	60
SRP_00203	Archaea_SRP links to Rfam database...	0.65	0.64	0.66	67	48727	39	4	30	5	38
SRP_00204	Archaea_SRP links to Rfam database...	0.56	0.53	0.59	54	49049	39	8	30	1	48
SRP_00206	Archaea_SRP links to Rfam database...	0.84	0.80	0.90	86	47799	11	5	5	1	22
SRP_00230	Fungi_SRP links to Rfam database...	0.69	0.63	0.75	57	39545	23	3	16	4	33
SRP_00239	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	50313	90	17	73	0	93
SRP_00240	Plant_SRP links to Rfam database...	0.38	0.36	0.41	37	48115	55	6	47	2	65
SRP_00241	Plant_SRP links to Rfam database...	0.26	0.27	0.26	22	45970	66	14	50	2	60
SRP_00252	Metazoa_SRP links to Rfam database...	0.44	0.42	0.46	37	49061	48	6	37	5	52
SRP_00253	Metazoa_SRP links to Rfam database...	0.23	0.22	0.23	20	49369	69	9	57	3	70
SRP_00254	Fungi_SRP links to Rfam database...	0.11	0.11	0.11	7	32323	57	13	42	2	54
SRP_00255	Archaea_SRP links to Rfam database...	0.29	0.30	0.29	28	47489	69	11	58	0	66
SRP_00257	Metazoa_SRP links to Rfam database...	0.56	0.52	0.61	56	50948	37	1	35	1	52
SRP_00260	Metazoa_SRP links to Rfam database...	0.69	0.66	0.72	66	47803	28	8	18	2	34
SRP_00265	Fungi_SRP links to Rfam database...	0.19	0.21	0.18	15	41245	72	19	49	4	58
SRP_00276	Archaea_SRP links to Rfam database...	0.66	0.63	0.70	69	50622	31	7	23	1	41
SRP_00278	Archaea_SRP links to Rfam database...	0.68	0.65	0.72	68	45961	29	4	23	2	37
SRP_00301	Fungi_SRP links to Rfam database...	0.55	0.50	0.60	43	32568	31	2	27	2	43
SRP_00302	Fungi_SRP links to Rfam database...	0.18	0.17	0.19	14	41543	61	7	52	2	67
SRP_00308	Bacteria_large_SRP links to Rfam database...	0.14	0.14	0.15	12	36233	70	11	59	0	76
SRP_00322	Archaea_SRP links to Rfam database...	0.57	0.54	0.61	59	48419	38	1	37	0	50
SRP_00323	Archaea_SRP links to Rfam database...	0.75	0.69	0.82	74	47188	19	0	16	3	33
SRP_00328	Metazoa_SRP links to Rfam database...	0.60	0.60	0.61	51	39537	36	7	26	3	34
SRP_00329	Metazoa_SRP links to Rfam database...	0.34	0.32	0.36	27	39829	50	4	43	3	58
SRP_00330	Archaea_SRP links to Rfam database...	0.19	0.18	0.20	17	50002	67	11	56	0	78
SRP_00331	Metazoa_SRP links to Rfam database...	0.15	0.13	0.17	11	37612	52	1	51	0	76
SRP_00332	Archaea_SRP links to Rfam database...	0.10	0.09	0.10	10	50305	88	5	83	0	96
SRP_00339	Archaea_SRP links to Rfam database...	0.44	0.43	0.45	40	44462	51	6	43	2	54
SRP_00340	Metazoa_SRP links to Rfam database...	0.30	0.32	0.29	26	41238	64	12	52	0	56
SRP_00361	Plant_SRP links to Rfam database...	0.15	0.14	0.16	13	41824	69	8	60	1	77
SRP_00371	Fungi_SRP links to Rfam database...	0.70	0.68	0.71	56	36236	29	3	20	6	26

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

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

Total Base Pair Counts
Total TP	323
Total TN	5184870
Total FP	74
Total FP CONTRA	3
Total FP INCONS	39
Total FP COMP	32
Total FN	9854

Total Scores
MCC	0.167
Average MCC ± 95% Confidence Intervals	0.064 ± 0.037
Sensitivity	0.032
Positive Predictive Value	0.885
Nr of predictions	116

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

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
ASE_00001	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	34191	0	0	0	0	75
ASE_00002	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	35511	0	0	0	0	73
ASE_00009	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	26106	0	0	0	0	67
ASE_00014	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	54285	0	0	0	0	106
ASE_00116	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	31626	0	0	0	0	66
ASE_00120	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	46971	0	0	0	0	94
ASE_00121	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	45150	0	0	0	0	92
ASE_00145	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	70125	0	0	0	0	111
ASE_00154	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	65341	0	0	0	0	107
ASE_00187	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	68635	0	0	0	0	115
ASE_00191	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	29646	0	0	0	0	61
ASE_00196	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	31626	0	0	0	0	75
ASE_00205	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	46056	0	0	0	0	90
ASE_00209	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	43071	0	0	0	0	88
ASE_00210	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	27261	0	0	0	0	65
ASE_00213	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	27261	0	0	0	0	66
ASE_00346	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	48205	0	0	0	0	97
ASE_00359	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	42778	0	0	0	0	80
ASE_00360	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	29403	0	0	0	0	65
ASE_00417	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	54615	0	0	0	0	100
ASE_00418	RNaseP_arch links to Rfam database...	0.00	0.00	0.00	0	38781	0	0	0	0	75
CRW_00016	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	77421	0	0	0	0	120
CRW_00610	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	36315	0	0	0	0	81
CRW_00613	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	34980	0	0	0	0	78
CRW_00618	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	56280	0	0	0	0	61
CRW_00633	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	63546	0	0	0	0	106
CRW_00634	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	64620	0	0	0	0	94
CRW_00670	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	70125	0	0	0	0	120
CRW_00671	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	62835	0	0	0	0	117
CRW_00672	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	72390	0	0	0	0	111
CRW_00692	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	68635	0	0	0	0	90
PDB_00827	Intron_gpI links to Rfam database...	0.00	0.00	0.00	0	27028	0	0	0	0	81
RFA_00606	Telomerase-cil links to Rfam database...	0.17	0.08	0.38	3	21313	6	1	4	1	36
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_00639	7SK links to Rfam database...	0.00	0.00	0.00	0	54608	7	0	7	0	87
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
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_00069	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	34453	0	0	0	0	85
SRP_00073	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	39060	0	0	0	0	71
SRP_00079	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	41905	0	0	0	0	88
SRP_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_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_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_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_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_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_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_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_00301	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	32640	0	0	0	0	86
SRP_00302	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	41616	0	0	0	0	81
SRP_00308	Bacteria_large_SRP links to Rfam database...	0.00	0.00	0.00	0	36315	0	0	0	0	88
SRP_00322	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	48516	0	0	0	0	109
SRP_00323	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	47278	0	0	0	0	107
SRP_00328	Metazoa_SRP links to Rfam database...	0.00	0.00	0.00	0	39621	0	0	0	0	85
SRP_00329	Metazoa_SRP links to Rfam database...	0.00	0.00	0.00	0	39903	0	0	0	0	85
SRP_00330	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	50086	0	0	0	0	95
SRP_00331	Metazoa_SRP links to Rfam database...	0.00	0.00	0.00	0	37675	0	0	0	0	87
SRP_00332	Archaea_SRP links to Rfam database...	0.00	0.00	0.00	0	50403	0	0	0	0	106
SRP_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_00361	Plant_SRP links to Rfam database...	0.00	0.00	0.00	0	41905	0	0	0	0	90
SRP_00371	Fungi_SRP links to Rfam database...	0.00	0.00	0.00	0	36315	0	0	0	0	82

^top

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

Table of contents:

Overview

Performance plots

Performance of RNASLOpt - scored higher in this pairwise comparison

1. Total counts & total scores for RNASLOpt

2. Individual counts for RNASLOpt [ 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 ]