CompaRNA - on-line benchmarks of RNA structure prediction methods

Laboratory of Structural Bioinformatics @ Adam Mickiewicz University in Poznan

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Overview

Metric	CentroidHomfold‑LAST		RNAalifold(seed)
MCC	0.793	>	0.610
Average MCC ± 95% Confidence Intervals	0.777 ± 0.031	>	0.563 ± 0.040
Sensitivity	0.735	>	0.404
Positive Predictive Value	0.858	<	0.923
Total TP	3589	>	1974
Total TN	822818	<	824862
Total FP	905	>	226
Total FP CONTRA	104	>	21
Total FP INCONS	489	>	143
Total FP COMP	312	>	62
Total FN	1295	<	2910
P-value	3.56938820447e-08

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Performance plots

Comparison of performance of CentroidHomfold-LAST and RNAalifold(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 CentroidHomfold‑LAST and RNAalifold(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 CentroidHomfold‑LAST and RNAalifold(seed)).
Comparison of average Matthews Correlation Coefficients (MCCs) for CentroidHomfold-LAST and RNAalifold(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 CentroidHomfold‑LAST and RNAalifold(seed)).

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Performance of CentroidHomfold‑LAST - scored higher in this pairwise comparison

1. Total counts & total scores for CentroidHomfold‑LAST

Total Base Pair Counts
Total TP	3589
Total TN	822818
Total FP	905
Total FP CONTRA	104
Total FP INCONS	489
Total FP COMP	312
Total FN	1295

Total Scores
MCC	0.793
Average MCC ± 95% Confidence Intervals	0.777 ± 0.031
Sensitivity	0.735
Positive Predictive Value	0.858
Nr of predictions	205

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2. Individual counts for CentroidHomfold‑LAST [ download as .csv ]

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
ASE_00251	RNaseP_nuc links to Rfam database...	0.79	0.67	0.94	29	17735	5	0	2	3	14
PDB_00005	Tymo_tRNA-like links to Rfam database...	0.70	0.50	1.00	7	939	0	0	0	0	7
PDB_00012	mir-TAR links to Rfam database...	1.00	1.00	1.00	7	399	1	0	0	1	0
PDB_00213	Gammaretro_CES links to Rfam database...	0.83	0.73	0.94	30	5018	2	0	2	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...	0.25	0.22	0.29	5	2684	12	0	12	0	18
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...	0.84	0.71	1.00	12	1069	0	0	0	0	5
PDB_00828	Purine links to Rfam database...	0.84	0.70	1.00	19	2466	0	0	0	0	8
PDB_00829	Purine links to Rfam database...	0.84	0.71	1.00	17	2261	0	0	0	0	7
PDB_00876	HIV_FE links to Rfam database...	0.92	0.90	0.95	18	971	1	0	1	0	2
PDB_01020	Purine links to Rfam database...	0.86	0.74	1.00	17	2261	0	0	0	0	6
PDB_01050	UnaL2 links to Rfam database...	0.78	0.62	1.00	8	622	1	0	0	1	5
PDB_01051	Telomerase-cil links to Rfam database...	0.96	0.92	1.00	12	891	4	0	0	4	1
PDB_01073	SAM links to Rfam database...	0.84	0.71	1.00	24	4347	1	0	0	1	10
PDB_01092	glmS links to Rfam database...	0.74	0.60	0.91	31	10119	5	0	3	2	21
PDB_01114	TPP links to Rfam database...	0.29	0.15	0.57	4	2843	3	0	3	0	23
PDB_01152	HIV_FS2 links to Rfam database...	0.88	0.79	1.00	11	550	0	0	0	0	3
PDB_01236	ykoK links to Rfam database...	0.84	0.72	0.98	39	11588	2	0	1	1	15
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...	0.97	0.93	1.00	14	1417	2	0	0	2	1
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...	0.97	0.93	1.00	14	1417	2	0	0	2	1
RFA_00416	Hammerhead_3 links to Rfam database...	1.00	1.00	1.00	15	1470	2	0	0	2	0
RFA_00425	Hammerhead_3 links to Rfam database...	0.64	0.60	0.69	9	1640	9	0	4	5	6
RFA_00427	Hammerhead_3 links to Rfam database...	0.97	0.93	1.00	14	1471	3	0	0	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_00446	Hammerhead_3 links to Rfam database...	0.89	0.80	1.00	12	1473	2	0	0	2	3
RFA_00449	Hammerhead_3 links to Rfam database...	0.97	0.93	1.00	14	1471	2	0	0	2	1
RFA_00582	Y_RNA links to Rfam database...	1.00	1.00	1.00	15	5980	17	0	0	17	0
RFA_00583	Y_RNA links to Rfam database...	0.93	0.93	0.93	14	4935	15	0	1	14	1
RFA_00584	Y_RNA links to Rfam database...	1.00	1.00	1.00	15	2911	12	0	0	12	0
RFA_00585	Y_RNA links to Rfam database...	1.00	1.00	1.00	15	4836	12	0	0	12	0
RFA_00586	Y_RNA links to Rfam database...	0.97	0.93	1.00	14	3902	9	0	0	9	1
RFA_00587	Y_RNA links to Rfam database...	1.00	1.00	1.00	15	4836	15	0	0	15	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	17	0	0	17	0
RFA_00594	Y_RNA links to Rfam database...	0.97	0.93	1.00	14	2761	6	0	0	6	1
RFA_00596	Y_RNA links to Rfam database...	0.86	0.73	1.00	11	5984	15	0	0	15	4
RFA_00603	Telomerase-cil links to Rfam database...	0.78	0.71	0.86	25	13501	4	3	1	0	10
RFA_00604	Telomerase-cil links to Rfam database...	0.74	0.63	0.88	22	13505	8	3	0	5	13
RFA_00605	Telomerase-cil links to Rfam database...	0.43	0.34	0.55	12	15203	18	0	10	8	23
RFA_00607	Telomerase-cil links to Rfam database...	0.91	0.83	1.00	30	17736	7	0	0	7	6
RFA_00609	Telomerase-cil links to Rfam database...	0.92	0.89	0.94	33	17920	11	0	2	9	4
RFA_00610	Telomerase-cil links to Rfam database...	0.89	0.84	0.94	31	17172	13	0	2	11	6
RFA_00611	Telomerase-cil links to Rfam database...	0.77	0.69	0.86	24	13013	4	3	1	0	11
RFA_00613	Telomerase-cil links to Rfam database...	0.73	0.66	0.82	23	12852	5	4	1	0	12
RFA_00615	Telomerase-cil links to Rfam database...	0.78	0.71	0.86	25	13337	4	3	1	0	10
RFA_00632	HDV_ribozyme links to Rfam database...	0.51	0.50	0.52	14	4068	13	3	10	0	14
RFA_00636	HDV_ribozyme links to Rfam database...	0.64	0.64	0.64	18	3977	10	3	7	0	10
RFA_00642	Vimentin3 links to Rfam database...	0.00	0.00	0.00	0	2923	3	0	3	0	18
RFA_00643	Vimentin3 links to Rfam database...	0.50	0.33	0.75	6	2203	2	0	2	0	12
RFA_00644	Vimentin3 links to Rfam database...	0.27	0.22	0.33	4	2689	9	3	5	1	14
RFA_00645	Vimentin3 links to Rfam database...	-0.01	0.00	0.00	0	2405	10	2	8	0	18
RFA_00649	Vimentin3 links to Rfam database...	0.75	0.61	0.92	11	2133	1	0	1	0	7
RFA_00651	Vimentin3 links to Rfam database...	0.76	0.72	0.81	13	2064	4	0	3	1	5
RFA_00653	Vimentin3 links to Rfam database...	0.29	0.28	0.31	5	2129	11	3	8	0	13
RFA_00654	Vimentin3 links to Rfam database...	0.62	0.39	1.00	7	2408	0	0	0	0	11
RFA_00658	Hammerhead_1 links to Rfam database...	0.69	0.64	0.75	9	1116	5	0	3	2	5
RFA_00659	Hammerhead_1 links to Rfam database...	0.47	0.36	0.63	5	1120	5	0	3	2	9
RFA_00664	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	983	7	0	7	0	14
RFA_00667	Hammerhead_1 links to Rfam database...	0.30	0.29	0.33	4	978	9	1	7	1	10
RFA_00668	Hammerhead_1 links to Rfam database...	0.44	0.36	0.56	5	981	4	0	4	0	9
RFA_00672	Hammerhead_1 links to Rfam database...	0.68	0.46	1.00	6	897	0	0	0	0	7
RFA_00673	Hammerhead_1 links to Rfam database...	0.44	0.36	0.56	5	1119	5	0	4	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...	0.35	0.29	0.44	4	981	5	0	5	0	10
RFA_00677	Hammerhead_1 links to Rfam database...	0.74	0.71	0.77	10	977	5	0	3	2	4
RFA_00678	Hammerhead_1 links to Rfam database...	0.80	0.64	1.00	9	937	0	0	0	0	5
RFA_00680	Hammerhead_1 links to Rfam database...	0.74	0.71	0.77	10	1115	5	0	3	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...	0.53	0.43	0.67	6	981	4	0	3	1	8
RFA_00695	Hammerhead_1 links to Rfam database...	0.43	0.43	0.43	6	7007	28	1	7	20	8
RFA_00703	Hammerhead_1 links to Rfam database...	0.43	0.43	0.43	6	4264	21	1	7	13	8
RFA_00704	Hammerhead_1 links to Rfam database...	0.67	0.57	0.80	8	980	3	0	2	1	6
RFA_00705	Hammerhead_1 links to Rfam database...	0.77	0.71	0.83	10	1023	2	0	2	0	4
RFA_00706	Hammerhead_1 links to Rfam database...	0.33	0.29	0.40	4	1025	6	0	6	0	10
RFA_00707	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	1027	8	0	8	0	14
RFA_00708	Hammerhead_1 links to Rfam database...	0.64	0.57	0.73	8	1024	3	0	3	0	6
RFA_00709	Hammerhead_1 links to Rfam database...	0.50	0.43	0.60	6	980	5	0	4	1	8
RFA_00710	Hammerhead_1 links to Rfam database...	0.70	0.50	1.00	7	983	0	0	0	0	7
RFA_00711	Hammerhead_1 links to Rfam database...	0.59	0.50	0.70	7	1025	3	0	3	0	7
RFA_00715	Hammerhead_1 links to Rfam database...	0.26	0.21	0.33	3	937	6	0	6	0	11
RFA_00716	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	939	7	0	7	0	14
RFA_00717	Hammerhead_1 links to Rfam database...	0.80	0.64	1.00	9	894	0	0	0	0	5
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	0	0	0	0	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...	0.96	0.92	1.00	11	892	0	0	0	0	1
RFA_00762	s2m links to Rfam database...	0.96	0.92	1.00	11	892	0	0	0	0	1
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...	0.66	0.44	1.00	8	1883	0	0	0	0	10
RFA_00768	Corona_pk3 links to Rfam database...	0.66	0.44	1.00	8	1883	0	0	0	0	10
RFA_00769	Corona_pk3 links to Rfam database...	0.54	0.56	0.53	10	1934	9	4	5	0	8
RFA_00770	Corona_pk3 links to Rfam database...	0.58	0.39	0.88	7	2008	1	0	1	0	11
RFA_00773	Corona_pk3 links to Rfam database...	0.55	0.56	0.56	10	1935	8	3	5	0	8
RFA_00779	Corona_pk3 links to Rfam database...	0.59	0.56	0.63	10	1937	6	2	4	0	8
RFA_00781	Gammaretro_CES links to Rfam database...	0.92	0.94	0.91	30	5017	3	2	1	0	2
RFA_00786	Gammaretro_CES links to Rfam database...	0.92	0.91	0.94	29	5019	2	2	0	0	3
RFA_00791	Gammaretro_CES links to Rfam database...	0.95	0.91	1.00	29	5122	1	0	0	1	3
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...	0.87	0.81	0.93	26	5022	3	0	2	1	6
RFA_00808	RydC links to Rfam database...	0.75	0.56	1.00	9	2007	0	0	0	0	7
RFA_00809	RydC links to Rfam database...	0.47	0.38	0.60	6	2135	4	0	4	0	10
SRP_00001	Bacteria_large_SRP links to Rfam database...	0.84	0.75	0.94	30	6754	2	1	1	0	10
SRP_00008	Bacteria_small_SRP links to Rfam database...	0.94	0.88	1.00	22	2904	0	0	0	0	3
SRP_00020	Bacteria_small_SRP links to Rfam database...	0.89	0.91	0.88	30	5531	4	1	3	0	3
SRP_00038	Bacteria_small_SRP links to Rfam database...	0.52	0.48	0.57	16	5022	12	0	12	0	17
SRP_00040	Bacteria_small_SRP links to Rfam database...	0.65	0.65	0.67	20	5535	11	1	9	1	11
SRP_00042	Bacteria_small_SRP links to Rfam database...	0.88	0.84	0.91	21	3982	3	1	1	1	4
SRP_00043	Bacteria_small_SRP links to Rfam database...	0.64	0.41	1.00	12	5038	1	0	0	1	17
SRP_00044	Bacteria_small_SRP links to Rfam database...	0.87	0.88	0.88	28	6073	5	1	3	1	4
SRP_00046	Bacteria_small_SRP links to Rfam database...	0.95	0.94	0.97	30	4722	2	0	1	1	2
SRP_00051	Bacteria_small_SRP links to Rfam database...	0.55	0.50	0.60	15	5435	10	1	9	0	15
SRP_00054	Bacteria_small_SRP links to Rfam database...	0.42	0.41	0.43	13	5535	17	0	17	0	19
SRP_00056	Bacteria_small_SRP links to Rfam database...	0.70	0.62	0.79	23	6412	6	1	5	0	14
SRP_00057	Bacteria_small_SRP links to Rfam database...	0.79	0.74	0.84	26	6297	6	1	4	1	9
SRP_00058	Bacteria_small_SRP links to Rfam database...	0.87	0.88	0.86	30	5743	6	1	4	1	4
SRP_00067	Bacteria_small_SRP links to Rfam database...	0.89	0.84	0.94	32	5744	2	1	1	0	6
SRP_00072	Bacteria_small_SRP links to Rfam database...	0.95	0.90	1.00	26	6302	0	0	0	0	3
SRP_00074	Bacteria_small_SRP links to Rfam database...	0.49	0.28	0.89	8	6546	1	0	1	0	21
SRP_00075	Bacteria_small_SRP links to Rfam database...	0.87	0.76	1.00	26	5539	0	0	0	0	8
SRP_00077	Bacteria_small_SRP links to Rfam database...	0.52	0.27	1.00	10	6660	0	0	0	0	27
SRP_00081	Bacteria_small_SRP links to Rfam database...	0.71	0.74	0.68	23	5531	11	1	10	0	8
SRP_00084	Bacteria_small_SRP links to Rfam database...	0.90	0.91	0.89	31	5425	4	1	3	0	3
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...	0.64	0.59	0.69	22	6409	11	1	9	1	15
SRP_00105	Bacteria_small_SRP links to Rfam database...	0.87	0.76	1.00	26	5539	0	0	0	0	8
SRP_00106	Bacteria_large_SRP links to Rfam database...	0.57	0.44	0.73	11	5238	6	2	2	2	14
SRP_00107	Bacteria_small_SRP links to Rfam database...	0.43	0.47	0.39	9	3632	14	2	12	0	10
SRP_00121	Bacteria_small_SRP links to Rfam database...	0.81	0.76	0.86	19	4256	4	0	3	1	6
SRP_00128	Bacteria_small_SRP links to Rfam database...	0.84	0.81	0.88	29	6753	5	1	3	1	7
SRP_00132	Bacteria_small_SRP links to Rfam database...	0.70	0.72	0.68	21	4820	13	0	10	3	8
SRP_00134	Bacteria_large_SRP links to Rfam database...	0.65	0.66	0.66	19	5966	13	0	10	3	10
SRP_00137	Bacteria_small_SRP links to Rfam database...	0.75	0.84	0.68	21	4155	10	4	6	0	4
SRP_00141	Bacteria_small_SRP links to Rfam database...	0.83	0.76	0.91	31	6294	4	1	2	1	10
SRP_00145	Bacteria_small_SRP links to Rfam database...	0.90	0.85	0.94	34	6292	2	1	1	0	6
SRP_00146	Bacteria_small_SRP links to Rfam database...	0.89	0.86	0.91	31	5219	3	1	2	0	5
SRP_00161	Bacteria_small_SRP links to Rfam database...	0.89	0.91	0.87	20	2827	3	0	3	0	2
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...	0.91	0.92	0.89	24	3459	3	0	3	0	2
SRP_00164	Bacteria_small_SRP links to Rfam database...	0.82	0.74	0.90	26	6874	4	1	2	1	9
SRP_00170	Bacteria_small_SRP links to Rfam database...	0.94	0.96	0.92	24	4069	3	1	1	1	1
SRP_00194	Bacteria_small_SRP links to Rfam database...	0.74	0.76	0.73	16	3218	6	0	6	0	5
SRP_00200	Bacteria_small_SRP links to Rfam database...	0.81	0.78	0.85	28	6870	5	1	4	0	8
SRP_00209	Bacteria_small_SRP links to Rfam database...	0.95	0.96	0.93	26	4628	2	1	1	0	1
SRP_00213	Bacteria_small_SRP links to Rfam database...	0.94	0.96	0.92	24	4160	2	1	1	0	1
SRP_00215	Bacteria_small_SRP links to Rfam database...	0.83	0.80	0.87	20	3217	3	0	3	0	5
SRP_00216	Bacteria_small_SRP links to Rfam database...	0.91	0.89	0.92	24	3377	3	1	1	1	3
SRP_00217	Bacteria_small_SRP links to Rfam database...	0.94	0.96	0.92	23	3296	3	0	2	1	1
SRP_00219	Bacteria_small_SRP links to Rfam database...	0.94	0.96	0.92	22	3297	3	0	2	1	1
SRP_00222	Bacteria_small_SRP links to Rfam database...	0.94	0.96	0.92	24	3055	3	1	1	1	1
SRP_00227	Bacteria_small_SRP links to Rfam database...	0.92	0.94	0.91	29	5119	3	1	2	0	2
SRP_00229	Bacteria_small_SRP links to Rfam database...	0.37	0.37	0.37	10	5226	17	5	12	0	17
SRP_00231	Bacteria_small_SRP links to Rfam database...	0.91	0.91	0.91	31	5426	3	1	2	0	3
SRP_00233	Bacteria_small_SRP links to Rfam database...	0.95	0.94	0.97	31	5119	1	0	1	0	2
SRP_00243	Bacteria_small_SRP links to Rfam database...	0.82	0.68	1.00	21	5130	1	0	0	1	10
SRP_00244	Bacteria_small_SRP links to Rfam database...	0.83	0.74	0.94	29	6872	3	1	1	1	10
SRP_00250	Bacteria_small_SRP links to Rfam database...	0.84	0.81	0.88	29	6753	4	1	3	0	7
SRP_00251	Bacteria_small_SRP links to Rfam database...	0.81	0.78	0.85	28	6988	5	1	4	0	8
SRP_00266	Bacteria_small_SRP links to Rfam database...	0.59	0.55	0.64	16	4631	10	1	8	1	13
SRP_00268	Bacteria_small_SRP links to Rfam database...	0.95	0.96	0.93	26	4158	2	1	1	0	1
SRP_00269	Bacteria_small_SRP links to Rfam database...	0.95	0.91	1.00	30	5020	0	0	0	0	3
SRP_00270	Bacteria_small_SRP links to Rfam database...	0.95	0.94	0.97	29	4626	1	0	1	0	2
SRP_00271	Bacteria_small_SRP links to Rfam database...	0.94	0.92	0.96	22	3217	1	0	1	0	2
SRP_00273	Bacteria_small_SRP links to Rfam database...	0.82	0.75	0.91	30	6753	4	1	2	1	10
SRP_00274	Bacteria_small_SRP links to Rfam database...	0.85	0.79	0.91	30	6870	4	1	2	1	8
SRP_00285	Bacteria_small_SRP links to Rfam database...	0.95	0.93	0.97	28	3712	1	0	1	0	2
SRP_00295	Bacteria_small_SRP links to Rfam database...	0.86	0.79	0.94	30	6871	3	1	1	1	8
SRP_00303	Bacteria_small_SRP links to Rfam database...	0.76	0.75	0.77	24	6639	8	1	6	1	8
SRP_00310	Bacteria_small_SRP links to Rfam database...	0.87	0.87	0.87	20	2903	3	0	3	0	3
SRP_00312	Bacteria_small_SRP links to Rfam database...	0.95	0.96	0.93	26	4158	2	1	1	0	1
SRP_00315	Bacteria_small_SRP links to Rfam database...	0.87	0.87	0.87	20	2903	3	0	3	0	3
SRP_00318	Bacteria_small_SRP links to Rfam database...	0.87	0.87	0.87	20	2980	3	0	3	0	3
SRP_00324	Bacteria_small_SRP links to Rfam database...	0.53	0.34	0.83	10	5344	2	0	2	0	19
SRP_00325	Bacteria_small_SRP links to Rfam database...	0.95	0.94	0.97	31	4339	1	0	1	0	2
SRP_00326	Bacteria_small_SRP links to Rfam database...	0.95	0.94	0.97	29	5020	1	0	1	0	2
SRP_00333	Bacteria_small_SRP links to Rfam database...	0.94	0.91	0.97	31	5119	1	0	1	0	3
SRP_00338	Bacteria_small_SRP links to Rfam database...	0.96	0.94	0.97	34	5425	1	0	1	0	2
SRP_00341	Bacteria_small_SRP links to Rfam database...	0.46	0.39	0.55	12	4731	10	0	10	0	19
SRP_00342	Bacteria_small_SRP links to Rfam database...	0.66	0.44	1.00	11	3994	0	0	0	0	14
SRP_00350	Bacteria_small_SRP links to Rfam database...	0.67	0.59	0.76	16	3895	5	3	2	0	11
SRP_00356	Bacteria_small_SRP links to Rfam database...	0.78	0.70	0.88	21	5026	3	0	3	0	9
SRP_00357	Bacteria_small_SRP links to Rfam database...	0.90	0.86	0.94	31	5323	3	1	1	1	5
SRP_00358	Bacteria_small_SRP links to Rfam database...	0.90	0.86	0.94	30	6296	3	1	1	1	5
SRP_00363	Bacteria_small_SRP links to Rfam database...	0.95	0.97	0.94	29	4722	4	0	2	2	1
SRP_00365	Bacteria_small_SRP links to Rfam database...	0.92	0.89	0.96	24	3378	1	0	1	0	3
SRP_00367	Bacteria_small_SRP links to Rfam database...	0.88	0.83	0.94	29	6755	2	1	1	0	6
SRP_00369	Bacteria_small_SRP links to Rfam database...	0.86	0.80	0.93	28	5748	2	1	1	0	7
SRP_00383	Bacteria_small_SRP links to Rfam database...	0.87	0.83	0.91	20	3218	2	0	2	0	4

^top

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

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

Total Base Pair Counts
Total TP	1974
Total TN	824862
Total FP	226
Total FP CONTRA	21
Total FP INCONS	143
Total FP COMP	62
Total FN	2910

Total Scores
MCC	0.610
Average MCC ± 95% Confidence Intervals	0.563 ± 0.040
Sensitivity	0.404
Positive Predictive Value	0.923
Nr of predictions	205

^top

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

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
ASE_00251	RNaseP_nuc links to Rfam database...	0.44	0.23	0.83	10	17754	6	0	2	4	33
PDB_00005	Tymo_tRNA-like links to Rfam database...	0.59	0.36	1.00	5	941	0	0	0	0	9
PDB_00012	mir-TAR links to Rfam database...	0.65	0.43	1.00	3	403	0	0	0	0	4
PDB_00213	Gammaretro_CES links to Rfam database...	0.60	0.49	0.74	20	5023	7	0	7	0	21
PDB_00553	mir-TAR links to Rfam database...	0.52	0.27	1.00	3	462	0	0	0	0	8
PDB_00716	HDV_ribozyme links to Rfam database...	0.60	0.43	0.83	10	2689	2	0	2	0	13
PDB_00741	Entero_5_CRE links to Rfam database...	0.68	0.47	1.00	8	695	0	0	0	0	9
PDB_00810	s2m links to Rfam database...	0.84	0.71	1.00	12	1069	0	0	0	0	5
PDB_00828	Purine links to Rfam database...	0.70	0.59	0.84	16	2466	3	2	1	0	11
PDB_00829	Purine links to Rfam database...	0.75	0.67	0.84	16	2259	3	2	1	0	8
PDB_00876	HIV_FE links to Rfam database...	0.59	0.40	0.89	8	981	1	0	1	0	12
PDB_01020	Purine links to Rfam database...	0.73	0.65	0.83	15	2260	4	2	1	1	8
PDB_01050	UnaL2 links to Rfam database...	0.55	0.31	1.00	4	626	1	0	0	1	9
PDB_01051	Telomerase-cil links to Rfam database...	0.96	0.92	1.00	12	891	4	0	0	4	1
PDB_01073	SAM links to Rfam database...	0.80	0.65	1.00	22	4349	1	0	0	1	12
PDB_01092	glmS links to Rfam database...	0.70	0.54	0.90	28	10122	4	0	3	1	24
PDB_01114	TPP links to Rfam database...	0.77	0.59	1.00	16	2834	0	0	0	0	11
PDB_01152	HIV_FS2 links to Rfam database...	0.80	0.71	0.91	10	550	1	0	1	0	4
PDB_01236	ykoK links to Rfam database...	0.76	0.57	1.00	31	11597	2	0	0	2	23
RFA_00389	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1418	1	0	0	1	2
RFA_00390	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1418	1	0	0	1	2
RFA_00391	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1418	1	0	0	1	2
RFA_00396	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1418	1	0	0	1	2
RFA_00402	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1418	1	0	0	1	2
RFA_00409	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1418	1	0	0	1	2
RFA_00416	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1472	1	0	0	1	2
RFA_00425	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1640	1	0	0	1	2
RFA_00427	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1472	1	0	0	1	2
RFA_00433	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1418	1	0	0	1	2
RFA_00434	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1418	1	0	0	1	2
RFA_00436	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1418	1	0	0	1	2
RFA_00440	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1472	1	0	0	1	2
RFA_00442	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1418	1	0	0	1	2
RFA_00444	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1527	1	0	0	1	2
RFA_00446	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1472	1	0	0	1	2
RFA_00449	Hammerhead_3 links to Rfam database...	0.93	0.87	1.00	13	1472	1	0	0	1	2
RFA_00582	Y_RNA links to Rfam database...	0.68	0.47	1.00	7	5988	0	0	0	0	8
RFA_00583	Y_RNA links to Rfam database...	0.68	0.47	1.00	7	4943	0	0	0	0	8
RFA_00584	Y_RNA links to Rfam database...	0.68	0.47	1.00	7	2919	0	0	0	0	8
RFA_00585	Y_RNA links to Rfam database...	0.68	0.47	1.00	7	4844	0	0	0	0	8
RFA_00586	Y_RNA links to Rfam database...	0.68	0.47	1.00	7	3909	0	0	0	0	8
RFA_00587	Y_RNA links to Rfam database...	0.68	0.47	1.00	7	4844	0	0	0	0	8
RFA_00588	Y_RNA links to Rfam database...	0.68	0.47	1.00	7	4553	0	0	0	0	8
RFA_00589	Y_RNA links to Rfam database...	0.63	0.40	1.00	6	4365	0	0	0	0	9
RFA_00594	Y_RNA links to Rfam database...	0.68	0.47	1.00	7	2768	0	0	0	0	8
RFA_00596	Y_RNA links to Rfam database...	0.58	0.33	1.00	5	5990	0	0	0	0	10
RFA_00603	Telomerase-cil links to Rfam database...	0.94	0.89	1.00	31	13499	0	0	0	0	4
RFA_00604	Telomerase-cil links to Rfam database...	0.94	0.89	1.00	31	13499	0	0	0	0	4
RFA_00605	Telomerase-cil links to Rfam database...	0.94	0.89	1.00	31	15194	0	0	0	0	4
RFA_00607	Telomerase-cil links to Rfam database...	0.93	0.86	1.00	31	17735	0	0	0	0	5
RFA_00609	Telomerase-cil links to Rfam database...	0.92	0.84	1.00	31	17924	0	0	0	0	6
RFA_00610	Telomerase-cil links to Rfam database...	0.92	0.84	1.00	31	17174	0	0	0	0	6
RFA_00611	Telomerase-cil links to Rfam database...	0.94	0.89	1.00	31	13010	0	0	0	0	4
RFA_00613	Telomerase-cil links to Rfam database...	0.94	0.89	1.00	31	12849	0	0	0	0	4
RFA_00615	Telomerase-cil links to Rfam database...	0.83	0.77	0.90	27	13336	3	0	3	0	8
RFA_00632	HDV_ribozyme links to Rfam database...	0.49	0.32	0.75	9	4083	3	2	1	0	19
RFA_00636	HDV_ribozyme links to Rfam database...	0.49	0.32	0.75	9	3993	3	2	1	0	19
RFA_00642	Vimentin3 links to Rfam database...	0.54	0.44	0.67	8	2914	4	0	4	0	10
RFA_00643	Vimentin3 links to Rfam database...	-0.01	0.00	0.00	0	2202	9	1	8	0	18
RFA_00644	Vimentin3 links to Rfam database...	0.44	0.33	0.60	6	2691	4	0	4	0	12
RFA_00645	Vimentin3 links to Rfam database...	-0.01	0.00	0.00	0	2406	9	1	8	0	18
RFA_00649	Vimentin3 links to Rfam database...	0.44	0.33	0.60	6	2135	4	0	4	0	12
RFA_00651	Vimentin3 links to Rfam database...	-0.01	0.00	0.00	0	2071	9	1	8	0	18
RFA_00653	Vimentin3 links to Rfam database...	0.42	0.33	0.55	6	2134	5	0	5	0	12
RFA_00654	Vimentin3 links to Rfam database...	0.52	0.44	0.62	8	2402	5	0	5	0	10
RFA_00658	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	1128	0	0	0	0	14
RFA_00659	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	1128	0	0	0	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...	0.00	0.00	0.00	0	990	0	0	0	0	14
RFA_00668	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	990	0	0	0	0	14
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...	0.00	0.00	0.00	0	1128	0	0	0	0	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...	0.00	0.00	0.00	0	990	0	0	0	0	14
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...	0.00	0.00	0.00	0	946	0	0	0	0	14
RFA_00680	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	1128	0	0	0	0	14
RFA_00684	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	990	0	0	0	0	14
RFA_00685	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	990	0	0	0	0	14
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...	0.00	0.00	0.00	0	1035	0	0	0	0	14
RFA_00706	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	1035	0	0	0	0	14
RFA_00707	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	1035	0	0	0	0	14
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...	0.00	0.00	0.00	0	990	0	0	0	0	14
RFA_00710	Hammerhead_1 links to Rfam database...	0.00	0.00	0.00	0	990	0	0	0	0	14
RFA_00711	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_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...	1.00	1.00	1.00	12	891	0	0	0	0	0
RFA_00731	s2m links to Rfam database...	1.00	1.00	1.00	12	891	0	0	0	0	0
RFA_00733	s2m links to Rfam database...	1.00	1.00	1.00	12	891	0	0	0	0	0
RFA_00734	s2m links to Rfam database...	1.00	1.00	1.00	12	891	0	0	0	0	0
RFA_00736	s2m links to Rfam database...	1.00	1.00	1.00	12	891	0	0	0	0	0
RFA_00737	s2m links to Rfam database...	1.00	1.00	1.00	12	891	0	0	0	0	0
RFA_00745	s2m links to Rfam database...	1.00	1.00	1.00	12	934	0	0	0	0	0
RFA_00749	s2m links to Rfam database...	1.00	1.00	1.00	12	891	0	0	0	0	0
RFA_00758	s2m links to Rfam database...	1.00	1.00	1.00	12	891	0	0	0	0	0
RFA_00762	s2m links to Rfam database...	1.00	1.00	1.00	12	891	0	0	0	0	0
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...	1.00	1.00	1.00	12	891	0	0	0	0	0
RFA_00765	s2m links to Rfam database...	1.00	1.00	1.00	12	891	0	0	0	0	0
RFA_00767	Corona_pk3 links to Rfam database...	0.65	0.56	0.77	10	1878	3	0	3	0	8
RFA_00768	Corona_pk3 links to Rfam database...	0.65	0.56	0.77	10	1878	3	0	3	0	8
RFA_00769	Corona_pk3 links to Rfam database...	0.65	0.56	0.77	10	1940	3	0	3	0	8
RFA_00770	Corona_pk3 links to Rfam database...	0.65	0.56	0.77	10	2003	3	0	3	0	8
RFA_00773	Corona_pk3 links to Rfam database...	0.65	0.56	0.77	10	1940	3	0	3	0	8
RFA_00779	Corona_pk3 links to Rfam database...	0.65	0.56	0.77	10	1940	3	0	3	0	8
RFA_00781	Gammaretro_CES links to Rfam database...	0.68	0.63	0.74	20	5023	7	1	6	0	12
RFA_00786	Gammaretro_CES links to Rfam database...	0.68	0.63	0.74	20	5023	7	1	6	0	12
RFA_00791	Gammaretro_CES links to Rfam database...	0.68	0.63	0.74	20	5124	7	1	6	0	12
RFA_00792	Gammaretro_CES links to Rfam database...	0.68	0.63	0.74	20	5023	7	1	6	0	12
RFA_00801	Gammaretro_CES links to Rfam database...	0.68	0.63	0.74	20	5023	7	1	6	0	12
RFA_00808	RydC links to Rfam database...	0.75	0.56	1.00	9	2007	0	0	0	0	7
RFA_00809	RydC links to Rfam database...	0.50	0.38	0.67	6	2136	3	0	3	0	10
SRP_00001	Bacteria_large_SRP links to Rfam database...	0.81	0.65	1.00	26	6760	1	0	0	1	14
SRP_00008	Bacteria_small_SRP links to Rfam database...	0.60	0.36	1.00	9	2917	0	0	0	0	16
SRP_00020	Bacteria_small_SRP links to Rfam database...	0.52	0.27	1.00	9	5556	0	0	0	0	24
SRP_00038	Bacteria_small_SRP links to Rfam database...	0.49	0.24	1.00	8	5042	1	0	0	1	25
SRP_00040	Bacteria_small_SRP links to Rfam database...	0.51	0.26	1.00	8	5557	1	0	0	1	23
SRP_00042	Bacteria_small_SRP links to Rfam database...	0.56	0.32	1.00	8	3997	1	0	0	1	17
SRP_00043	Bacteria_small_SRP links to Rfam database...	0.56	0.31	1.00	9	5041	0	0	0	0	20
SRP_00044	Bacteria_small_SRP links to Rfam database...	0.53	0.28	1.00	9	6096	0	0	0	0	23
SRP_00046	Bacteria_small_SRP links to Rfam database...	0.53	0.28	1.00	9	4744	0	0	0	0	23
SRP_00051	Bacteria_small_SRP links to Rfam database...	0.52	0.27	1.00	8	5452	1	0	0	1	22
SRP_00054	Bacteria_small_SRP links to Rfam database...	0.50	0.25	1.00	8	5557	1	0	0	1	24
SRP_00056	Bacteria_small_SRP links to Rfam database...	0.49	0.24	1.00	9	6432	0	0	0	0	28
SRP_00057	Bacteria_small_SRP links to Rfam database...	0.51	0.26	1.00	9	6319	0	0	0	0	26
SRP_00058	Bacteria_small_SRP links to Rfam database...	0.51	0.26	1.00	9	5769	0	0	0	0	25
SRP_00067	Bacteria_small_SRP links to Rfam database...	0.49	0.24	1.00	9	5769	0	0	0	0	29
SRP_00072	Bacteria_small_SRP links to Rfam database...	0.52	0.28	1.00	8	6320	1	0	0	1	21
SRP_00074	Bacteria_small_SRP links to Rfam database...	0.52	0.28	1.00	8	6547	1	0	0	1	21
SRP_00075	Bacteria_small_SRP links to Rfam database...	0.34	0.18	0.67	6	5556	3	0	3	0	28
SRP_00077	Bacteria_small_SRP links to Rfam database...	0.46	0.22	1.00	8	6662	1	0	0	1	29
SRP_00081	Bacteria_small_SRP links to Rfam database...	0.54	0.29	1.00	9	5556	0	0	0	0	22
SRP_00084	Bacteria_small_SRP links to Rfam database...	0.51	0.26	1.00	9	5451	0	0	0	0	25
SRP_00094	Bacteria_small_SRP links to Rfam database...	0.61	0.38	1.00	9	4086	0	0	0	0	15
SRP_00095	Bacteria_small_SRP links to Rfam database...	0.60	0.36	1.00	9	3996	0	0	0	0	16
SRP_00098	Bacteria_small_SRP links to Rfam database...	0.49	0.24	1.00	9	6432	0	0	0	0	28
SRP_00105	Bacteria_small_SRP links to Rfam database...	0.51	0.26	1.00	9	5556	0	0	0	0	25
SRP_00106	Bacteria_large_SRP links to Rfam database...	0.70	0.72	0.69	18	5227	10	3	5	2	7
SRP_00107	Bacteria_small_SRP links to Rfam database...	0.65	0.42	1.00	8	3647	1	0	0	1	11
SRP_00121	Bacteria_small_SRP links to Rfam database...	0.56	0.32	1.00	8	4270	1	0	0	1	17
SRP_00128	Bacteria_small_SRP links to Rfam database...	0.50	0.25	1.00	9	6777	0	0	0	0	27
SRP_00132	Bacteria_small_SRP links to Rfam database...	0.56	0.31	1.00	9	4842	0	0	0	0	20
SRP_00134	Bacteria_large_SRP links to Rfam database...	0.70	0.62	0.78	18	5972	9	0	5	4	11
SRP_00137	Bacteria_small_SRP links to Rfam database...	0.60	0.36	1.00	9	4177	0	0	0	0	16
SRP_00141	Bacteria_small_SRP links to Rfam database...	0.44	0.20	1.00	8	6320	1	0	0	1	33
SRP_00145	Bacteria_small_SRP links to Rfam database...	0.47	0.23	1.00	9	6319	0	0	0	0	31
SRP_00146	Bacteria_small_SRP links to Rfam database...	0.50	0.25	1.00	9	5244	0	0	0	0	27
SRP_00161	Bacteria_small_SRP links to Rfam database...	0.60	0.36	1.00	8	2842	1	0	0	1	14
SRP_00162	Bacteria_small_SRP links to Rfam database...	0.62	0.39	1.00	9	2917	0	0	0	0	14
SRP_00163	Bacteria_small_SRP links to Rfam database...	0.55	0.31	1.00	8	3478	1	0	0	1	18
SRP_00164	Bacteria_small_SRP links to Rfam database...	0.51	0.26	1.00	9	6894	0	0	0	0	26
SRP_00170	Bacteria_small_SRP links to Rfam database...	0.56	0.32	1.00	8	4087	1	0	0	1	17
SRP_00194	Bacteria_small_SRP links to Rfam database...	0.38	0.24	0.63	5	3232	3	0	3	0	16
SRP_00200	Bacteria_small_SRP links to Rfam database...	0.50	0.25	1.00	9	6894	0	0	0	0	27
SRP_00209	Bacteria_small_SRP links to Rfam database...	0.58	0.33	1.00	9	4647	0	0	0	0	18
SRP_00213	Bacteria_small_SRP links to Rfam database...	0.60	0.36	1.00	9	4177	0	0	0	0	16
SRP_00215	Bacteria_small_SRP links to Rfam database...	0.56	0.32	1.00	8	3232	0	0	0	0	17
SRP_00216	Bacteria_small_SRP links to Rfam database...	0.58	0.33	1.00	9	3394	0	0	0	0	18
SRP_00217	Bacteria_small_SRP links to Rfam database...	0.61	0.38	1.00	9	3312	0	0	0	0	15
SRP_00219	Bacteria_small_SRP links to Rfam database...	0.59	0.35	1.00	8	3313	1	0	0	1	15
SRP_00222	Bacteria_small_SRP links to Rfam database...	0.56	0.32	1.00	8	3073	0	0	0	0	17
SRP_00227	Bacteria_small_SRP links to Rfam database...	0.54	0.29	1.00	9	5142	0	0	0	0	22
SRP_00229	Bacteria_small_SRP links to Rfam database...	0.34	0.19	0.63	5	5245	4	0	3	1	22
SRP_00231	Bacteria_small_SRP links to Rfam database...	0.51	0.26	1.00	9	5451	0	0	0	0	25
SRP_00233	Bacteria_small_SRP links to Rfam database...	0.52	0.27	1.00	9	5142	0	0	0	0	24
SRP_00243	Bacteria_small_SRP links to Rfam database...	0.54	0.29	1.00	9	5142	0	0	0	0	22
SRP_00244	Bacteria_small_SRP links to Rfam database...	0.45	0.21	1.00	8	6895	1	0	0	1	31
SRP_00250	Bacteria_small_SRP links to Rfam database...	0.50	0.25	1.00	9	6777	0	0	0	0	27
SRP_00251	Bacteria_small_SRP links to Rfam database...	0.50	0.25	1.00	9	7012	0	0	0	0	27
SRP_00266	Bacteria_small_SRP links to Rfam database...	0.49	0.28	0.89	8	4647	1	0	1	0	21
SRP_00268	Bacteria_small_SRP links to Rfam database...	0.58	0.33	1.00	9	4177	0	0	0	0	18
SRP_00269	Bacteria_small_SRP links to Rfam database...	0.52	0.27	1.00	9	5041	0	0	0	0	24
SRP_00270	Bacteria_small_SRP links to Rfam database...	0.51	0.26	1.00	8	4648	1	0	0	1	23
SRP_00271	Bacteria_small_SRP links to Rfam database...	0.61	0.38	1.00	9	3231	0	0	0	0	15
SRP_00273	Bacteria_small_SRP links to Rfam database...	0.47	0.23	1.00	9	6777	0	0	0	0	31
SRP_00274	Bacteria_small_SRP links to Rfam database...	0.49	0.24	1.00	9	6894	0	0	0	0	29
SRP_00285	Bacteria_small_SRP links to Rfam database...	0.55	0.30	1.00	9	3732	0	0	0	0	21
SRP_00295	Bacteria_small_SRP links to Rfam database...	0.46	0.21	1.00	8	6895	1	0	0	1	30
SRP_00303	Bacteria_small_SRP links to Rfam database...	0.53	0.28	1.00	9	6661	0	0	0	0	23
SRP_00310	Bacteria_small_SRP links to Rfam database...	0.62	0.39	1.00	9	2917	0	0	0	0	14
SRP_00312	Bacteria_small_SRP links to Rfam database...	0.54	0.30	1.00	8	4178	1	0	0	1	19
SRP_00315	Bacteria_small_SRP links to Rfam database...	0.62	0.39	1.00	9	2917	0	0	0	0	14
SRP_00318	Bacteria_small_SRP links to Rfam database...	0.62	0.39	1.00	9	2994	0	0	0	0	14
SRP_00324	Bacteria_small_SRP links to Rfam database...	0.49	0.28	0.89	8	5347	1	0	1	0	21
SRP_00325	Bacteria_small_SRP links to Rfam database...	0.52	0.27	1.00	9	4362	0	0	0	0	24
SRP_00326	Bacteria_small_SRP links to Rfam database...	0.51	0.26	1.00	8	5042	1	0	0	1	23
SRP_00333	Bacteria_small_SRP links to Rfam database...	0.51	0.26	1.00	9	5142	0	0	0	0	25
SRP_00338	Bacteria_small_SRP links to Rfam database...	0.50	0.25	1.00	9	5451	0	0	0	0	27
SRP_00341	Bacteria_small_SRP links to Rfam database...	0.51	0.26	1.00	8	4745	1	0	0	1	23
SRP_00342	Bacteria_small_SRP links to Rfam database...	0.60	0.36	1.00	9	3996	0	0	0	0	16
SRP_00350	Bacteria_small_SRP links to Rfam database...	0.58	0.33	1.00	9	3907	0	0	0	0	18
SRP_00356	Bacteria_small_SRP links to Rfam database...	0.52	0.27	1.00	8	5042	1	0	0	1	22
SRP_00357	Bacteria_small_SRP links to Rfam database...	0.50	0.25	1.00	9	5347	0	0	0	0	27
SRP_00358	Bacteria_small_SRP links to Rfam database...	0.51	0.26	1.00	9	6319	0	0	0	0	26
SRP_00363	Bacteria_small_SRP links to Rfam database...	0.55	0.30	1.00	9	4744	0	0	0	0	21
SRP_00365	Bacteria_small_SRP links to Rfam database...	0.51	0.30	0.89	8	3394	1	0	1	0	19
SRP_00367	Bacteria_small_SRP links to Rfam database...	0.51	0.26	1.00	9	6777	0	0	0	0	26
SRP_00369	Bacteria_small_SRP links to Rfam database...	0.51	0.26	1.00	9	5769	0	0	0	0	26
SRP_00383	Bacteria_small_SRP links to Rfam database...	0.58	0.33	1.00	8	3232	1	0	0	1	16

^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 CentroidHomfold‑LAST - scored higher in this pairwise comparison

1. Total counts & total scores for CentroidHomfold‑LAST

2. Individual counts for CentroidHomfold‑LAST [ download as .csv ]

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

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

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