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		NanoFolder
MCC	0.569	>	0.335
Average MCC ± 95% Confidence Intervals	0.588 ± 0.060	>	0.389 ± 0.054
Sensitivity	0.520	>	0.384
Positive Predictive Value	0.628	>	0.301
Total TP	1442	>	1064
Total TN	414702	>	413459
Total FP	934	<	2599
Total FP CONTRA	105	<	475
Total FP INCONS	749	<	2000
Total FP COMP	80	<	124
Total FN	1329	<	1707
P-value	3.56938820447e-08

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Performance plots

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

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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	1442
Total TN	414702
Total FP	934
Total FP CONTRA	105
Total FP INCONS	749
Total FP COMP	80
Total FN	1329

Total Scores
MCC	0.569
Average MCC ± 95% Confidence Intervals	0.588 ± 0.060
Sensitivity	0.520
Positive Predictive Value	0.628
Nr of predictions	117

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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
CRW_01535	5S_rRNA links to Rfam database...	0.23	0.22	0.24	8	7107	25	3	22	0	29
CRW_01539	5S_rRNA links to Rfam database...	0.71	0.62	0.82	23	7112	7	0	5	2	14
CRW_01563	5S_rRNA links to Rfam database...	0.33	0.27	0.40	10	6878	15	3	12	0	27
CRW_01583	5S_rRNA links to Rfam database...	0.15	0.14	0.19	5	7113	22	4	18	0	32
CRW_01590	5S_rRNA links to Rfam database...	0.25	0.24	0.26	9	7105	26	3	23	0	28
CRW_01593	5S_rRNA links to Rfam database...	0.73	0.65	0.83	24	7111	6	0	5	1	13
CRW_01595	5S_rRNA links to Rfam database...	0.00	0.00	0.00	0	8485	31	5	25	1	37
CRW_01603	5S_rRNA links to Rfam database...	0.36	0.32	0.41	12	7111	17	2	15	0	25
CRW_01617	5S_rRNA links to Rfam database...	0.22	0.22	0.23	8	7105	27	3	24	0	29
CRW_01625	5S_rRNA links to Rfam database...	0.80	0.73	0.87	27	7109	5	0	4	1	10
PDB_00011	-	0.91	0.83	1.00	10	266	0	0	0	0	2
PDB_00017	-	0.77	0.60	1.00	9	694	0	0	0	0	6
PDB_00036	-	-0.01	0.00	0.00	0	3466	26	0	20	6	27
PDB_00070	tRNA links to Rfam database...	0.41	0.38	0.45	9	2830	12	0	11	1	15
PDB_00113	-	0.74	0.56	1.00	5	226	0	0	0	0	4
PDB_00119	-	0.95	0.90	1.00	9	244	0	0	0	0	1
PDB_00136	-	0.71	0.58	0.88	15	2398	2	0	2	0	11
PDB_00137	-	0.87	0.77	1.00	10	396	0	0	0	0	3
PDB_00160	-	0.94	0.89	1.00	8	268	0	0	0	0	1
PDB_00178	-	0.39	0.36	0.44	4	519	5	1	4	0	7
PDB_00221	-	0.66	0.44	1.00	4	249	0	0	0	0	5
PDB_00312	-	0.46	0.44	0.50	4	427	4	0	4	0	5
PDB_00326	-	0.74	0.61	0.89	17	3722	2	0	2	0	11
PDB_00341	-	0.52	0.44	0.64	7	692	4	0	4	0	9
PDB_00349	-	-0.01	0.00	0.00	0	936	10	0	10	0	14
PDB_00417	-	0.12	0.11	0.14	6	14154	38	4	32	2	50
PDB_00430	tRNA links to Rfam database...	0.58	0.52	0.65	13	3220	7	3	4	0	12
PDB_00527	-	-0.01	0.00	0.00	0	296	4	1	3	0	5
PDB_00565	-	0.54	0.48	0.62	24	8089	16	1	14	1	26
PDB_00570	-	0.90	0.82	1.00	18	2260	0	0	0	0	4
PDB_00571	tRNA links to Rfam database...	0.87	0.80	0.95	20	3300	1	1	0	0	5
PDB_00573	-	0.63	0.53	0.75	18	6646	10	0	6	4	16
PDB_00584	-	0.23	0.24	0.25	4	1469	12	0	12	0	13
PDB_00698	-	0.94	0.89	1.00	17	844	0	0	0	0	2
PDB_00725	-	0.89	0.80	1.00	12	583	0	0	0	0	3
PDB_00734	-	0.62	0.40	1.00	4	227	0	0	0	0	6
PDB_00823	-	-0.03	0.00	0.00	0	186	4	0	4	0	9
PDB_00828	Purine links to Rfam database...	0.88	0.78	1.00	21	2464	0	0	0	0	6
PDB_00851	-	0.45	0.39	0.53	16	4723	14	0	14	0	25
PDB_00890	-	-0.02	0.00	0.00	0	694	9	2	7	0	14
PDB_00923	-	1.00	1.00	1.00	6	184	0	0	0	0	0
PDB_00994	-	0.11	0.12	0.11	5	10541	40	5	34	1	37
PDB_01009	tRNA links to Rfam database...	0.90	0.90	0.90	19	2464	5	0	2	3	2
PDB_01051	Telomerase-cil links to Rfam database...	0.79	0.69	0.90	9	893	2	0	1	1	4
PDB_01074	-	-0.01	0.00	0.00	0	2746	29	3	26	0	25
PDB_01130	-	-0.01	0.00	0.00	0	1752	18	4	14	0	20
PDB_01199	-	-0.01	0.00	0.00	0	2133	12	2	10	0	24
PDB_01236	ykoK links to Rfam database...	0.62	0.52	0.74	28	11590	11	0	10	1	26
PDB_01275	-	0.35	0.31	0.40	22	18281	34	3	30	1	49
RFA_00416	Hammerhead_3 links to Rfam database...	0.77	0.60	1.00	9	1476	1	0	0	1	6
RFA_00434	Hammerhead_3 links to Rfam database...	0.77	0.60	1.00	9	1422	1	0	0	1	6
RFA_00436	Hammerhead_3 links to Rfam database...	0.77	0.60	1.00	9	1422	1	0	0	1	6
RFA_00442	Hammerhead_3 links to Rfam database...	0.77	0.60	1.00	9	1422	1	0	0	1	6
RFA_00446	Hammerhead_3 links to Rfam database...	0.77	0.60	1.00	9	1476	2	0	0	2	6
RFA_00604	Telomerase-cil links to Rfam database...	0.73	0.66	0.82	23	13502	12	4	1	7	12
RFA_00664	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	980	11	0	10	1	14
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...	0.74	0.71	0.77	10	977	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_00703	Hammerhead_1 links to Rfam database...	0.41	0.43	0.40	6	4263	20	3	6	11	8
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...	-0.01	0.00	0.00	0	894	9	0	9	0	14
RFA_00730	s2m links to Rfam database...	0.64	0.42	1.00	5	898	1	0	0	1	7
RFA_00763	s2m links to Rfam database...	0.64	0.42	1.00	5	898	1	0	0	1	7
RFA_00765	s2m links to Rfam database...	0.64	0.42	1.00	5	898	1	0	0	1	7
RFA_00770	Corona_pk3 links to Rfam database...	0.47	0.39	0.58	7	2004	5	1	4	0	11
RFA_00773	Corona_pk3 links to Rfam database...	0.59	0.56	0.63	10	1937	6	1	5	0	8
RFA_00808	RydC links to Rfam database...	0.75	0.56	1.00	9	2007	0	0	0	0	7
SPR_00030	-	0.49	0.43	0.56	9	2469	8	0	7	1	12
SPR_00066	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00228	tRNA links to Rfam database...	0.47	0.50	0.45	10	3806	13	5	7	1	10
SPR_00314	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	2	0	0	2	0
SPR_00331	tRNA links to Rfam database...	0.92	0.85	1.00	17	2758	0	0	0	0	3
SPR_00333	tRNA links to Rfam database...	0.93	0.86	1.00	18	2757	0	0	0	0	3
SPR_00353	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00398	-	-0.01	0.00	0.00	0	2193	20	4	14	2	13
SPR_00452	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...	0.55	0.57	0.55	12	2828	12	2	8	2	9
SPR_00462	tRNA links to Rfam database...	0.89	0.79	1.00	15	2400	1	0	0	1	4
SPR_00476	tRNA links to Rfam database...	1.00	1.00	1.00	21	2754	0	0	0	0	0
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...	1.00	1.00	1.00	21	2754	0	0	0	0	0
SPR_00502	tRNA links to Rfam database...	1.00	1.00	1.00	21	2905	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_00542	tRNA links to Rfam database...	0.31	0.33	0.29	7	3546	17	2	15	0	14
SPR_00557	tRNA links to Rfam database...	1.00	1.00	1.00	21	2829	0	0	0	0	0
SPR_00832	-	0.64	0.67	0.63	10	1637	6	2	4	0	5
SPR_00868	tRNA links to Rfam database...	0.87	0.81	0.94	17	2908	2	0	1	1	4
SPR_00932	tRNA links to Rfam database...	0.87	0.81	0.94	17	2832	2	0	1	1	4
SPR_00957	tRNA links to Rfam database...	0.60	0.57	0.63	12	2984	9	0	7	2	9
SPR_01040	tRNA links to Rfam database...	0.87	0.81	0.94	17	2757	2	0	1	1	4
SPR_01143	tRNA links to Rfam database...	0.74	0.76	0.73	16	2534	6	3	3	0	5
SRP_00005	-	0.17	0.17	0.18	4	3983	19	1	17	1	20
SRP_00038	Bacteria_small_SRP links to Rfam database...	0.30	0.27	0.33	9	5023	18	0	18	0	24
SRP_00046	Bacteria_small_SRP links to Rfam database...	0.95	0.91	1.00	29	4724	1	0	0	1	3
SRP_00138	-	0.54	0.52	0.56	14	3980	13	2	9	2	13
SRP_00170	Bacteria_small_SRP links to Rfam database...	0.53	0.52	0.54	13	4071	12	2	9	1	12
SRP_00193	-	0.19	0.19	0.20	7	6868	29	2	26	1	29
SRP_00194	Bacteria_small_SRP links to Rfam database...	0.35	0.33	0.37	7	3221	12	0	12	0	14
SRP_00200	Bacteria_small_SRP links to Rfam database...	0.83	0.72	0.96	26	6876	1	0	1	0	10
SRP_00216	Bacteria_small_SRP links to Rfam database...	0.88	0.85	0.92	23	3378	3	1	1	1	4
SRP_00229	Bacteria_small_SRP links to Rfam database...	0.37	0.37	0.37	10	5226	17	5	12	0	17
SRP_00233	Bacteria_small_SRP links to Rfam database...	0.46	0.42	0.50	14	5123	14	0	14	0	19
SRP_00243	Bacteria_small_SRP links to Rfam database...	0.90	0.81	1.00	25	5126	0	0	0	0	6
SRP_00244	Bacteria_small_SRP links to Rfam database...	0.56	0.51	0.63	20	6871	12	2	10	0	19
SRP_00266	Bacteria_small_SRP links to Rfam database...	0.42	0.34	0.53	10	4637	9	1	8	0	19
SRP_00269	Bacteria_small_SRP links to Rfam database...	0.43	0.42	0.44	14	5018	18	2	16	0	19
SRP_00273	Bacteria_small_SRP links to Rfam database...	0.95	0.90	1.00	36	6750	1	0	0	1	4
SRP_00285	Bacteria_small_SRP links to Rfam database...	0.87	0.77	1.00	23	3718	0	0	0	0	7
SRP_00303	Bacteria_small_SRP links to Rfam database...	0.63	0.59	0.68	19	6642	9	1	8	0	13
SRP_00333	Bacteria_small_SRP links to Rfam database...	0.74	0.65	0.85	22	5125	4	1	3	0	12
SRP_00338	Bacteria_small_SRP links to Rfam database...	0.93	0.86	1.00	31	5429	0	0	0	0	5
SRP_00342	Bacteria_small_SRP links to Rfam database...	0.48	0.40	0.59	10	3988	7	1	6	0	15
SRP_00358	Bacteria_small_SRP links to Rfam database...	0.68	0.63	0.73	22	6298	8	2	6	0	13
SRP_00383	Bacteria_small_SRP links to Rfam database...	-0.01	0.00	0.00	0	3223	17	1	16	0	24

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Performance of NanoFolder - scored lower in this pairwise comparison

1. Total counts & total scores for NanoFolder

Total Base Pair Counts
Total TP	1064
Total TN	413459
Total FP	2599
Total FP CONTRA	475
Total FP INCONS	2000
Total FP COMP	124
Total FN	1707

Total Scores
MCC	0.335
Average MCC ± 95% Confidence Intervals	0.389 ± 0.054
Sensitivity	0.384
Positive Predictive Value	0.301
Nr of predictions	117

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

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
CRW_01535	5S_rRNA links to Rfam database...	0.20	0.24	0.17	9	7088	43	7	36	0	28
CRW_01539	5S_rRNA links to Rfam database...	0.10	0.11	0.10	4	7099	40	1	36	3	33
CRW_01563	5S_rRNA links to Rfam database...	0.11	0.14	0.11	5	6856	43	5	37	1	32
CRW_01583	5S_rRNA links to Rfam database...	0.36	0.41	0.33	15	7095	31	8	22	1	22
CRW_01590	5S_rRNA links to Rfam database...	-0.01	0.00	0.00	0	7093	50	7	40	3	37
CRW_01593	5S_rRNA links to Rfam database...	0.32	0.38	0.29	14	7091	36	5	30	1	23
CRW_01595	5S_rRNA links to Rfam database...	-0.01	0.00	0.00	0	8459	57	10	46	1	37
CRW_01603	5S_rRNA links to Rfam database...	0.41	0.46	0.38	17	7095	29	6	22	1	20
CRW_01617	5S_rRNA links to Rfam database...	0.20	0.24	0.17	9	7087	45	7	37	1	28
CRW_01625	5S_rRNA links to Rfam database...	0.43	0.49	0.38	18	7093	31	7	22	2	19
PDB_00011	-	0.96	0.92	1.00	11	265	0	0	0	0	1
PDB_00017	-	0.66	0.67	0.67	10	688	5	1	4	0	5
PDB_00036	-	-0.01	0.00	0.00	0	3457	29	1	28	0	27
PDB_00070	tRNA links to Rfam database...	0.25	0.29	0.23	7	2819	24	4	20	0	17
PDB_00113	-	0.94	0.89	1.00	8	223	0	0	0	0	1
PDB_00119	-	0.95	0.90	1.00	9	244	0	0	0	0	1
PDB_00136	-	0.70	0.73	0.68	19	2387	9	1	8	0	7
PDB_00137	-	0.87	0.77	1.00	10	396	0	0	0	0	3
PDB_00160	-	0.89	0.89	0.89	8	267	2	0	1	1	1
PDB_00178	-	-0.02	0.00	0.00	0	517	11	1	10	0	11
PDB_00221	-	0.94	0.89	1.00	8	245	0	0	0	0	1
PDB_00312	-	1.00	1.00	1.00	9	426	1	0	0	1	0
PDB_00326	-	0.58	0.64	0.53	18	3707	16	4	12	0	10
PDB_00341	-	0.47	0.44	0.54	7	690	6	0	6	0	9
PDB_00349	-	0.10	0.14	0.10	2	926	18	0	18	0	12
PDB_00417	-	0.00	0.00	0.00	0	14138	58	2	56	0	56
PDB_00430	tRNA links to Rfam database...	0.38	0.44	0.34	11	3208	21	6	15	0	14
PDB_00527	-	-0.02	0.00	0.00	0	292	8	2	6	0	5
PDB_00565	-	0.24	0.24	0.24	12	8079	37	1	36	0	38
PDB_00570	-	-0.01	0.00	0.00	0	2257	21	0	21	0	22
PDB_00571	tRNA links to Rfam database...	-0.01	0.00	0.00	0	3286	36	6	29	1	25
PDB_00573	-	-0.01	0.00	0.00	0	6622	48	5	43	0	34
PDB_00584	-	0.47	0.53	0.43	9	1464	12	1	11	0	8
PDB_00698	-	0.97	0.95	1.00	18	843	0	0	0	0	1
PDB_00725	-	0.82	0.80	0.86	12	581	2	0	2	0	3
PDB_00734	-	0.83	0.70	1.00	7	224	0	0	0	0	3
PDB_00823	-	-0.04	0.00	0.00	0	183	7	0	7	0	9
PDB_00828	Purine links to Rfam database...	0.30	0.33	0.28	9	2453	23	0	23	0	18
PDB_00851	-	0.16	0.17	0.17	7	4711	35	3	32	0	34
PDB_00890	-	-0.02	0.00	0.00	0	690	13	2	11	0	14
PDB_00923	-	1.00	1.00	1.00	6	184	2	0	0	2	0
PDB_00994	-	0.40	0.50	0.33	21	10521	44	13	30	1	21
PDB_01009	tRNA links to Rfam database...	0.27	0.33	0.23	7	2455	25	3	20	2	14
PDB_01051	Telomerase-cil links to Rfam database...	-0.02	0.00	0.00	0	885	18	1	17	0	13
PDB_01074	-	-0.01	0.00	0.00	0	2747	28	3	25	0	25
PDB_01130	-	-0.01	0.00	0.00	0	1742	28	5	23	0	20
PDB_01199	-	-0.01	0.00	0.00	0	2116	29	2	27	0	24
PDB_01236	ykoK links to Rfam database...	0.31	0.33	0.30	18	11568	43	3	39	1	36
PDB_01275	-	0.04	0.04	0.04	3	18258	75	6	69	0	68
RFA_00416	Hammerhead_3 links to Rfam database...	0.94	1.00	0.88	15	1468	6	2	0	4	0
RFA_00434	Hammerhead_3 links to Rfam database...	0.84	1.00	0.71	15	1410	8	6	0	2	0
RFA_00436	Hammerhead_3 links to Rfam database...	0.86	1.00	0.75	15	1411	7	5	0	2	0
RFA_00442	Hammerhead_3 links to Rfam database...	0.94	1.00	0.88	15	1414	4	2	0	2	0
RFA_00446	Hammerhead_3 links to Rfam database...	0.85	0.93	0.78	14	1467	7	3	1	3	1
RFA_00604	Telomerase-cil links to Rfam database...	0.42	0.54	0.33	19	13472	53	14	25	14	16
RFA_00664	Hammerhead_1 links to Rfam database...	-0.01	0.00	0.00	0	978	13	0	12	1	14
RFA_00674	Hammerhead_1 links to Rfam database...	0.12	0.14	0.13	2	1112	15	0	14	1	12
RFA_00675	Hammerhead_1 links to Rfam database...	0.28	0.29	0.29	4	976	10	1	9	0	10
RFA_00677	Hammerhead_1 links to Rfam database...	0.62	0.64	0.60	9	975	10	0	6	4	5
RFA_00684	Hammerhead_1 links to Rfam database...	0.74	0.71	0.77	10	977	5	2	1	2	4
RFA_00703	Hammerhead_1 links to Rfam database...	0.26	0.36	0.19	5	4252	32	5	16	11	9
RFA_00716	Hammerhead_1 links to Rfam database...	-0.02	0.00	0.00	0	929	17	0	17	0	14
RFA_00717	Hammerhead_1 links to Rfam database...	0.64	0.64	0.64	9	889	5	2	3	0	5
RFA_00730	s2m links to Rfam database...	0.38	0.42	0.36	5	889	10	3	6	1	7
RFA_00763	s2m links to Rfam database...	0.38	0.42	0.36	5	889	10	3	6	1	7
RFA_00765	s2m links to Rfam database...	0.39	0.42	0.38	5	890	9	2	6	1	7
RFA_00770	Corona_pk3 links to Rfam database...	-0.01	0.00	0.00	0	1996	24	0	20	4	18
RFA_00773	Corona_pk3 links to Rfam database...	0.93	1.00	0.86	18	1932	9	3	0	6	0
RFA_00808	RydC links to Rfam database...	0.83	1.00	0.70	16	1993	7	7	0	0	0
SPR_00030	-	0.47	0.52	0.42	11	2459	16	2	13	1	10
SPR_00066	tRNA links to Rfam database...	0.47	0.57	0.39	12	2819	20	4	15	1	9
SPR_00228	tRNA links to Rfam database...	0.44	0.60	0.32	12	3791	26	15	10	1	8
SPR_00314	tRNA links to Rfam database...	0.47	0.57	0.39	12	2895	21	9	10	2	9
SPR_00331	tRNA links to Rfam database...	0.48	0.60	0.39	12	2744	19	6	13	0	8
SPR_00333	tRNA links to Rfam database...	0.25	0.33	0.21	7	2741	27	10	17	0	14
SPR_00353	tRNA links to Rfam database...	0.64	0.81	0.52	17	2817	16	8	8	0	4
SPR_00398	-	-0.01	0.00	0.00	0	2185	28	10	16	2	13
SPR_00452	tRNA links to Rfam database...	0.27	0.33	0.23	7	2820	24	7	16	1	14
SPR_00456	tRNA links to Rfam database...	0.49	0.57	0.43	12	2822	19	5	11	3	9
SPR_00462	tRNA links to Rfam database...	0.65	0.74	0.58	14	2391	11	4	6	1	5
SPR_00476	tRNA links to Rfam database...	0.47	0.52	0.42	11	2749	17	4	11	2	10
SPR_00496	tRNA links to Rfam database...	0.47	0.57	0.40	12	2745	22	7	11	4	9
SPR_00497	tRNA links to Rfam database...	0.27	0.33	0.23	7	2745	23	5	18	0	14
SPR_00502	tRNA links to Rfam database...	0.27	0.33	0.23	7	2896	26	2	21	3	14
SPR_00509	tRNA links to Rfam database...	0.23	0.30	0.19	6	2895	25	8	17	0	14
SPR_00512	tRNA links to Rfam database...	0.61	0.75	0.50	15	2896	15	6	9	0	5
SPR_00542	tRNA links to Rfam database...	0.26	0.33	0.22	7	3538	28	4	21	3	14
SPR_00557	tRNA links to Rfam database...	0.42	0.52	0.34	11	2818	22	8	13	1	10
SPR_00832	-	0.53	0.67	0.43	10	1630	13	5	8	0	5
SPR_00868	tRNA links to Rfam database...	0.49	0.57	0.43	12	2898	19	5	11	3	9
SPR_00932	tRNA links to Rfam database...	0.43	0.52	0.35	11	2819	21	7	13	1	10
SPR_00957	tRNA links to Rfam database...	0.63	0.76	0.53	16	2973	15	7	7	1	5
SPR_01040	tRNA links to Rfam database...	0.15	0.19	0.13	4	2744	27	4	23	0	17
SPR_01143	tRNA links to Rfam database...	0.41	0.48	0.36	10	2528	18	8	10	0	11
SRP_00005	-	-0.01	0.00	0.00	0	3966	39	6	33	0	24
SRP_00038	Bacteria_small_SRP links to Rfam database...	0.23	0.27	0.20	9	5005	36	1	35	0	24
SRP_00046	Bacteria_small_SRP links to Rfam database...	0.33	0.38	0.29	12	4712	30	3	26	1	20
SRP_00138	-	0.44	0.52	0.39	14	3969	24	8	14	2	13
SRP_00170	Bacteria_small_SRP links to Rfam database...	0.29	0.36	0.25	9	4059	28	4	23	1	16
SRP_00193	-	0.16	0.19	0.15	7	6855	43	4	37	2	29
SRP_00194	Bacteria_small_SRP links to Rfam database...	0.27	0.33	0.23	7	3209	27	5	19	3	14
SRP_00200	Bacteria_small_SRP links to Rfam database...	0.41	0.47	0.35	17	6855	31	4	27	0	19
SRP_00216	Bacteria_small_SRP links to Rfam database...	0.44	0.48	0.41	13	3371	19	4	15	0	14
SRP_00229	Bacteria_small_SRP links to Rfam database...	0.42	0.52	0.35	14	5213	26	8	18	0	13
SRP_00233	Bacteria_small_SRP links to Rfam database...	0.25	0.30	0.22	10	5106	35	4	31	0	23
SRP_00243	Bacteria_small_SRP links to Rfam database...	0.47	0.55	0.40	17	5109	25	7	18	0	14
SRP_00244	Bacteria_small_SRP links to Rfam database...	0.38	0.44	0.34	17	6853	33	2	31	0	22
SRP_00266	Bacteria_small_SRP links to Rfam database...	0.55	0.66	0.46	19	4615	22	8	14	0	10
SRP_00269	Bacteria_small_SRP links to Rfam database...	0.46	0.52	0.43	17	5010	24	6	17	1	16
SRP_00273	Bacteria_small_SRP links to Rfam database...	0.36	0.40	0.33	16	6737	34	6	27	1	24
SRP_00285	Bacteria_small_SRP links to Rfam database...	0.38	0.43	0.35	13	3704	24	6	18	0	17
SRP_00303	Bacteria_small_SRP links to Rfam database...	0.36	0.41	0.33	13	6630	27	3	24	0	19
SRP_00333	Bacteria_small_SRP links to Rfam database...	0.20	0.24	0.19	8	5108	35	3	32	0	26
SRP_00338	Bacteria_small_SRP links to Rfam database...	0.52	0.56	0.49	20	5419	22	4	17	1	16
SRP_00342	Bacteria_small_SRP links to Rfam database...	0.20	0.24	0.17	6	3970	29	7	22	0	19
SRP_00358	Bacteria_small_SRP links to Rfam database...	0.32	0.37	0.28	13	6282	33	4	29	0	22
SRP_00383	Bacteria_small_SRP links to Rfam database...	-0.01	0.00	0.00	0	3205	35	9	26	0	24

^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 NanoFolder - scored lower in this pairwise comparison

1. Total counts & total scores for NanoFolder

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