CompaRNA - on-line benchmarks of RNA structure prediction methods

Laboratory of Structural Bioinformatics @ Adam Mickiewicz University in Poznan

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Overview

Metric	CentroidFold		MCFold
MCC	0.630	>	0.510
Average MCC ± 95% Confidence Intervals	0.669 ± 0.054	>	0.582 ± 0.065
Sensitivity	0.546	>	0.525
Positive Predictive Value	0.734	>	0.503
Total TP	1550	>	1491
Total TN	342004	>	341155
Total FP	655	<	1702
Total FP CONTRA	73	<	187
Total FP INCONS	490	<	1284
Total FP COMP	92	<	231
Total FN	1291	<	1350
P-value	3.56938820447e-08

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Performance plots

Comparison of performance of CentroidFold and MCFold. 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 CentroidFold and MCFold).
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 CentroidFold and MCFold).
Comparison of average Matthews Correlation Coefficients (MCCs) for CentroidFold and MCFold. 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 CentroidFold and MCFold).

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Performance of CentroidFold - scored higher in this pairwise comparison

1. Total counts & total scores for CentroidFold

Total Base Pair Counts
Total TP	1550
Total TN	342004
Total FP	655
Total FP CONTRA	73
Total FP INCONS	490
Total FP COMP	92
Total FN	1291

Total Scores
MCC	0.630
Average MCC ± 95% Confidence Intervals	0.669 ± 0.054
Sensitivity	0.546
Positive Predictive Value	0.734
Nr of predictions	118

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

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
2KD8_A	-	1.00	1.00	1.00	9	222	0	0	0	0	0
2KE6_A	K10_TLS links to Rfam database...	0.97	0.95	1.00	18	1110	1	0	0	1	1
2KMJ_A	-	1.00	1.00	1.00	11	367	0	0	0	0	0
2KPV_A	-	0.96	0.92	1.00	12	549	0	0	0	0	1
2KU0_A	-	0.47	0.31	0.71	5	696	2	0	2	0	11
2KUR_A	K10_TLS links to Rfam database...	0.95	0.90	1.00	19	1109	0	0	0	0	2
2KUU_A	K10_TLS links to Rfam database...	0.92	0.86	1.00	18	1110	1	0	0	1	3
2KUV_A	K10_TLS links to Rfam database...	0.93	0.86	1.00	19	1109	0	0	0	0	3
2KUW_A	K10_TLS links to Rfam database...	0.95	0.90	1.00	19	1109	0	0	0	0	2
2KX8_A	7SK links to Rfam database...	0.94	0.89	1.00	16	845	0	0	0	0	2
2KXM_A	-	0.89	0.80	1.00	8	343	0	0	0	0	2
2KZL_A	-	0.86	0.74	1.00	14	1471	0	0	0	0	5
2L1F_A	Gammaretro_CES links to Rfam database...	0.98	0.96	1.00	23	2057	0	0	0	0	1
2L1F_B	Gammaretro_CES links to Rfam database...	0.98	0.96	1.00	24	2121	0	0	0	0	1
2L2K_A	-	0.94	0.89	1.00	17	844	0	0	0	0	2
2L3C_B	-	0.91	0.82	1.00	14	547	0	0	0	0	3
2L3E_A	-	0.96	0.92	1.00	12	583	1	0	0	1	1
2L3J_B	mir-2985-2 links to Rfam database...	0.94	0.88	1.00	30	2455	0	0	0	0	4
2L5Z_A	-	0.86	0.75	1.00	9	316	0	0	0	0	3
2L94_A	HIV_FE links to Rfam database...	0.92	0.90	0.95	18	971	1	0	1	0	2
2LA5_A	-	0.42	0.26	0.71	5	623	2	0	2	0	14
2LBS_A	-	1.00	1.00	1.00	14	482	0	0	0	0	0
2LC8_A	GP_knot1 links to Rfam database...	0.49	0.35	0.70	7	1530	3	1	2	0	13
2LDL_A	-	0.90	0.82	1.00	9	342	1	0	0	1	2
2LDT_A	-	0.85	0.73	1.00	11	454	0	0	0	0	4
2LHP_A	-	0.97	0.94	1.00	15	651	0	0	0	0	1
2LI4_A	-	0.93	0.88	1.00	14	482	0	0	0	0	2
2LJJ_A	-	1.00	1.00	1.00	8	343	2	0	0	2	0
2LK3_A	-	0.95	0.90	1.00	9	267	0	0	0	0	1
2LKR_A	-	0.82	0.74	0.91	29	6073	4	0	3	1	10
2LQZ_A	-	0.85	0.82	0.90	9	341	1	1	0	0	2
2LU0_A	-	0.93	0.88	1.00	14	1162	0	0	0	0	2
2LWK_A	-	0.92	0.92	0.92	12	483	1	0	1	0	1
2M58_A	-	0.09	0.06	0.14	1	1646	6	0	6	0	16
2RPT_A	-	1.00	1.00	1.00	7	183	0	0	0	0	0
2RRC_A	-	0.70	0.50	1.00	5	226	0	0	0	0	5
2WRQ_Y	tRNA links to Rfam database...	0.57	0.59	0.56	10	2832	12	5	3	4	7
2WW9_F	-	0.59	0.60	0.60	6	290	4	0	4	0	4
2WW9_E	-	0.00	0.00	0.00	0	561	0	0	0	0	14
2WW9_D	-	0.29	0.12	0.75	3	1949	1	0	1	0	23
2WWQ_V	tRNA links to Rfam database...	0.80	0.68	0.95	19	2906	3	0	1	2	9
2XKV_B	Bacteria_small_SRP links to Rfam database...	0.51	0.50	0.53	10	4541	25	0	9	16	10
2XQD_Y	tRNA links to Rfam database...	0.75	0.67	0.86	18	2829	3	0	3	0	9
2XXA_G	Bacteria_small_SRP links to Rfam database...	0.15	0.12	0.20	5	5126	20	1	19	0	37
2Y8W_B	-	1.00	1.00	1.00	6	184	1	0	0	1	0
2Y9C_V	-	0.66	0.63	0.71	15	2257	8	1	5	2	9
2YIE_Z	-	0.43	0.42	0.45	5	1529	6	3	3	0	7
2YIE_X	-	0.67	0.58	0.78	7	1369	3	1	1	1	5
2ZZN_D	tRNA links to Rfam database...	0.82	0.78	0.88	21	2461	3	0	3	0	6
3A2K_C	tRNA links to Rfam database...	0.44	0.43	0.46	12	2900	14	2	12	0	16
3A3A_A	tRNA-Sec links to Rfam database...	0.87	0.76	1.00	28	3627	0	0	0	0	9
3AKZ_H	tRNA links to Rfam database...	0.43	0.39	0.48	11	2678	12	2	10	0	17
3AM1_B	-	0.68	0.63	0.73	22	3210	8	1	7	0	13
3AMU_B	tRNA links to Rfam database...	0.70	0.59	0.84	16	2984	5	0	3	2	11
3GX2_A	SAM links to Rfam database...	0.79	0.63	1.00	25	4346	1	0	0	1	15
3IAB_R	-	0.86	0.86	0.86	12	1021	4	1	1	2	2
3ID5_D	-	-0.01	0.00	0.00	0	490	6	3	3	0	9
3IVN_B	Purine links to Rfam database...	0.78	0.61	1.00	19	2327	0	0	0	0	12
3IWN_A	c-di-GMP-I links to Rfam database...	0.80	0.67	0.96	22	4255	1	0	1	0	11
3IZF_C	5S_rRNA links to Rfam database...	0.68	0.61	0.77	33	6860	10	1	9	0	21
3J0L_1	-	0.65	0.47	0.90	9	1215	2	0	1	1	10
3J0L_2	-	0.25	0.24	0.28	8	6187	24	0	21	3	25
3J0L_g	-	0.00	0.00	0.00	0	465	0	0	0	0	4
3J0L_7	-	-0.01	0.00	0.00	0	1220	5	0	5	0	17
3J0L_h	-	0.77	0.65	0.90	28	6074	5	0	3	2	15
3J0L_a	-	0.41	0.31	0.56	5	1119	4	2	2	0	11
3J0L_8	-	0.93	0.88	1.00	7	183	0	0	0	0	1
3J16_L	tRNA links to Rfam database...	0.50	0.40	0.63	12	2756	7	0	7	0	18
3J20_0	tRNA links to Rfam database...	0.44	0.40	0.50	12	2826	13	0	12	1	18
3J2L_3	5S_rRNA links to Rfam database...	0.53	0.49	0.58	26	7830	21	0	19	2	27
3J3D_C	tRNA links to Rfam database...	0.49	0.43	0.57	12	2754	9	0	9	0	16
3J3E_7	5S_rRNA links to Rfam database...	0.46	0.37	0.59	20	7106	14	1	13	0	34
3J3E_8	5_8S_rRNA links to Rfam database...	0.00	0.00	0.00	0	7485	21	2	16	3	33
3J3F_7	5S_rRNA links to Rfam database...	0.20	0.18	0.23	9	7221	30	1	29	0	41
3J3F_8	5_8S_rRNA links to Rfam database...	0.34	0.33	0.34	12	12211	34	4	19	11	24
3JYV_7	tRNA links to Rfam database...	0.77	0.59	1.00	19	2831	0	0	0	0	13
3JYX_4	5_8S_rRNA links to Rfam database...	0.23	0.21	0.25	7	12218	25	5	16	4	26
3JYX_3	5S_rRNA links to Rfam database...	0.29	0.30	0.30	8	6301	20	8	11	1	19
3KTW_C	-	0.45	0.40	0.53	17	4528	16	2	13	1	26
3LA5_A	Purine links to Rfam database...	0.78	0.62	1.00	21	2464	0	0	0	0	13
3NDB_M	-	0.80	0.70	0.91	43	9133	5	0	4	1	18
3NKB_B	-	0.57	0.50	0.65	13	1996	7	0	7	0	13
3NMU_E	-	0.71	0.50	1.00	3	558	3	0	0	3	3
3O58_3	5_8S_rRNA links to Rfam database...	0.38	0.29	0.50	10	12383	10	0	10	0	25
3O58_2	5S_rRNA links to Rfam database...	0.82	0.76	0.88	29	7227	7	1	3	3	9
3OVB_D	-	1.00	1.00	1.00	11	584	1	0	0	1	0
3OVS_D	-	0.96	0.92	1.00	12	549	0	0	0	0	1
3P22_G	-	0.96	0.92	1.00	11	730	1	0	0	1	1
3PDR_A	ykoK links to Rfam database...	0.73	0.60	0.90	43	12832	7	0	5	2	29
3R4F_A	-	0.81	0.76	0.86	19	2123	3	1	2	0	6
3R9X_C	-	0.84	0.80	0.89	8	586	2	0	1	1	2
3RKF_A	Purine links to Rfam database...	0.76	0.59	1.00	20	2191	0	0	0	0	14
3SD1_A	THF links to Rfam database...	0.58	0.48	0.71	20	3888	8	1	7	0	22
3SIU_F	-	0.79	0.64	1.00	7	371	0	0	0	0	4
3SN2_B	IRE_II links to Rfam database...	0.96	0.92	1.00	11	395	0	0	0	0	1
3TRZ_Z	-	0.91	0.83	1.00	5	205	1	0	0	1	1
3TS0_U	-	1.00	1.00	1.00	6	247	1	0	0	1	0
3TS2_V	-	1.00	1.00	1.00	5	271	0	0	0	0	0
3U4M_B	-	0.57	0.46	0.71	17	3136	7	0	7	0	20
3VJR_D	-	0.96	0.92	1.00	12	618	0	0	0	0	1
3ZEX_F	-	0.00	0.00	0.00	0	2619	9	2	7	0	12
3ZEX_C	5_8S_rRNA links to Rfam database...	0.47	0.27	0.82	14	14179	3	1	2	0	38
3ZEX_G	-	0.36	0.28	0.46	21	16425	29	2	23	4	53
3ZEX_D	5S_rRNA links to Rfam database...	0.73	0.59	0.91	29	6989	3	0	3	0	20
3ZEX_H	-	0.19	0.18	0.21	7	9011	27	4	23	0	31
3ZND_W	tRNA links to Rfam database...	0.20	0.22	0.19	5	2977	23	1	20	2	18
4A1C_2	5_8S_rRNA links to Rfam database...	0.16	0.15	0.17	5	11752	29	5	19	5	28
4A1C_3	5S_rRNA links to Rfam database...	0.67	0.56	0.81	30	7103	7	1	6	0	24
4A4U_A	-	1.00	1.00	1.00	9	222	0	0	0	0	0
4ATO_G	-	0.31	0.20	0.50	2	524	2	0	2	0	8
4ENB_A	crcB links to Rfam database...	0.76	0.58	1.00	11	1264	0	0	0	0	8
4ENC_A	crcB links to Rfam database...	0.73	0.58	0.92	11	1314	1	1	0	0	8
4FNJ_A	-	0.15	0.13	0.22	2	586	7	0	7	0	14
4FRG_B	AdoCbl-variant links to Rfam database...	0.24	0.22	0.28	7	3461	18	3	15	0	25
4FRN_A	AdoCbl-variant links to Rfam database...	0.40	0.28	0.59	10	5134	7	2	5	0	26
4HXH_A	-	1.00	1.00	1.00	6	319	0	0	0	0	0
4JF2_A	preQ1-II links to Rfam database...	0.78	0.61	1.00	19	2831	0	0	0	0	12
4JRC_A	-	0.81	0.70	0.94	16	1523	1	0	1	0	7

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Performance of MCFold - scored lower in this pairwise comparison

1. Total counts & total scores for MCFold

Total Base Pair Counts
Total TP	1491
Total TN	341155
Total FP	1702
Total FP CONTRA	187
Total FP INCONS	1284
Total FP COMP	231
Total FN	1350

Total Scores
MCC	0.510
Average MCC ± 95% Confidence Intervals	0.582 ± 0.065
Sensitivity	0.525
Positive Predictive Value	0.503
Nr of predictions	118

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

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
2KD8_A	-	1.00	1.00	1.00	9	222	1	0	0	1	0
2KE6_A	K10_TLS links to Rfam database...	1.00	1.00	1.00	19	1109	2	0	0	2	0
2KMJ_A	-	1.00	1.00	1.00	11	367	1	0	0	1	0
2KPV_A	-	1.00	1.00	1.00	13	548	2	0	0	2	0
2KU0_A	-	0.97	0.94	1.00	15	688	0	0	0	0	1
2KUR_A	K10_TLS links to Rfam database...	1.00	1.00	1.00	21	1107	0	0	0	0	0
2KUU_A	K10_TLS links to Rfam database...	0.98	0.95	1.00	20	1108	1	0	0	1	1
2KUV_A	K10_TLS links to Rfam database...	0.98	0.95	1.00	21	1107	0	0	0	0	1
2KUW_A	K10_TLS links to Rfam database...	0.95	0.95	0.95	20	1107	1	0	1	0	1
2KX8_A	7SK links to Rfam database...	0.91	0.89	0.94	16	844	2	0	1	1	2
2KXM_A	-	1.00	1.00	1.00	10	341	1	0	0	1	0
2KZL_A	-	0.80	0.84	0.76	16	1464	9	1	4	4	3
2L1F_A	Gammaretro_CES links to Rfam database...	0.72	0.75	0.69	18	2054	9	0	8	1	6
2L1F_B	Gammaretro_CES links to Rfam database...	0.73	0.76	0.70	19	2118	9	0	8	1	6
2L2K_A	-	1.00	1.00	1.00	19	842	1	0	0	1	0
2L3C_B	-	0.97	0.94	1.00	16	545	0	0	0	0	1
2L3E_A	-	1.00	1.00	1.00	13	582	1	0	0	1	0
2L3J_B	mir-2985-2 links to Rfam database...	1.00	1.00	1.00	34	2451	0	0	0	0	0
2L5Z_A	-	0.96	0.92	1.00	11	314	0	0	0	0	1
2L94_A	HIV_FE links to Rfam database...	0.97	0.95	1.00	19	971	0	0	0	0	1
2LA5_A	-	-0.03	0.00	0.00	0	615	15	0	15	0	19
2LBS_A	-	1.00	1.00	1.00	14	482	1	0	0	1	0
2LC8_A	GP_knot1 links to Rfam database...	0.41	0.45	0.39	9	1517	16	0	14	2	11
2LDL_A	-	0.95	0.91	1.00	10	341	2	0	0	2	1
2LDT_A	-	0.75	0.73	0.79	11	451	3	0	3	0	4
2LHP_A	-	1.00	1.00	1.00	16	650	1	0	0	1	0
2LI4_A	-	0.97	0.94	1.00	15	481	0	0	0	0	1
2LJJ_A	-	1.00	1.00	1.00	8	343	2	0	0	2	0
2LK3_A	-	1.00	1.00	1.00	10	266	0	0	0	0	0
2LKR_A	-	0.93	0.92	0.95	36	6067	14	0	2	12	3
2LQZ_A	-	0.91	0.91	0.91	10	340	1	1	0	0	1
2LU0_A	-	1.00	1.00	1.00	16	1160	5	0	0	5	0
2LWK_A	-	0.92	0.92	0.92	12	483	2	0	1	1	1
2M58_A	-	0.20	0.24	0.18	4	1631	19	2	16	1	13
2RPT_A	-	1.00	1.00	1.00	7	183	2	0	0	2	0
2RRC_A	-	0.95	0.90	1.00	9	222	0	0	0	0	1
2WRQ_Y	tRNA links to Rfam database...	0.27	0.35	0.22	6	2823	25	8	13	4	11
2WW9_F	-	0.59	0.60	0.60	6	290	4	0	4	0	4
2WW9_E	-	-0.02	0.00	0.00	0	547	14	0	14	0	14
2WW9_D	-	-0.01	0.00	0.00	0	1925	28	5	23	0	26
2WWQ_V	tRNA links to Rfam database...	0.15	0.18	0.15	5	2892	30	4	25	1	23
2XKV_B	Bacteria_small_SRP links to Rfam database...	0.20	0.25	0.17	5	4530	37	2	23	12	15
2XQD_Y	tRNA links to Rfam database...	0.34	0.37	0.32	10	2819	22	1	20	1	17
2XXA_G	Bacteria_small_SRP links to Rfam database...	0.23	0.24	0.24	10	5110	32	1	30	1	32
2Y8W_B	-	1.00	1.00	1.00	6	184	2	0	0	2	0
2Y9C_V	-	0.62	0.67	0.59	16	2251	13	2	9	2	8
2YIE_Z	-	0.36	0.50	0.27	6	1518	18	4	12	2	6
2YIE_X	-	0.06	0.08	0.06	1	1361	21	1	15	5	11
2ZZN_D	tRNA links to Rfam database...	0.61	0.63	0.61	17	2457	13	1	10	2	10
3A2K_C	tRNA links to Rfam database...	0.44	0.46	0.42	13	2895	18	2	16	0	15
3A3A_A	tRNA-Sec links to Rfam database...	0.89	0.86	0.91	32	3620	3	1	2	0	5
3AKZ_H	tRNA links to Rfam database...	0.40	0.43	0.39	12	2670	19	3	16	0	16
3AM1_B	-	0.93	0.89	0.97	31	3208	2	0	1	1	4
3AMU_B	tRNA links to Rfam database...	0.44	0.48	0.42	13	2972	18	2	16	0	14
3GX2_A	SAM links to Rfam database...	0.47	0.48	0.48	19	4331	22	0	21	1	21
3IAB_R	-	0.84	0.93	0.76	13	1018	8	2	2	4	1
3ID5_D	-	0.34	0.33	0.38	3	488	9	0	5	4	6
3IVN_B	Purine links to Rfam database...	0.39	0.39	0.40	12	2316	18	0	18	0	19
3IWN_A	c-di-GMP-I links to Rfam database...	0.19	0.21	0.18	7	4238	33	8	25	0	26
3IZF_C	5S_rRNA links to Rfam database...	0.71	0.69	0.74	37	6853	14	0	13	1	17
3J0L_1	-	0.79	0.79	0.79	15	1206	6	0	4	2	4
3J0L_2	-	0.21	0.24	0.18	8	6172	39	7	29	3	25
3J0L_g	-	0.13	0.25	0.08	1	452	12	8	4	0	3
3J0L_7	-	-0.01	0.00	0.00	0	1206	19	4	15	0	17
3J0L_h	-	0.91	0.91	0.91	39	6062	13	0	4	9	4
3J0L_a	-	0.16	0.19	0.17	3	1110	15	1	14	0	13
3J0L_8	-	1.00	1.00	1.00	8	182	0	0	0	0	0
3J16_L	tRNA links to Rfam database...	0.45	0.47	0.44	14	2743	19	1	17	1	16
3J20_0	tRNA links to Rfam database...	0.59	0.57	0.63	17	2823	12	1	9	2	13
3J2L_3	5S_rRNA links to Rfam database...	0.58	0.57	0.60	30	7825	23	2	18	3	23
3J3D_C	tRNA links to Rfam database...	0.42	0.43	0.43	12	2747	18	2	14	2	16
3J3E_7	5S_rRNA links to Rfam database...	0.40	0.39	0.42	21	7090	29	3	26	0	33
3J3E_8	5_8S_rRNA links to Rfam database...	0.12	0.12	0.12	4	7470	46	3	26	17	29
3J3F_7	5S_rRNA links to Rfam database...	0.74	0.74	0.74	37	7210	17	2	11	4	13
3J3F_8	5_8S_rRNA links to Rfam database...	0.13	0.17	0.11	6	12191	61	9	40	12	30
3JYV_7	tRNA links to Rfam database...	0.21	0.22	0.21	7	2817	26	0	26	0	25
3JYX_4	5_8S_rRNA links to Rfam database...	0.20	0.24	0.17	8	12199	43	16	23	4	25
3JYX_3	5S_rRNA links to Rfam database...	0.41	0.52	0.33	14	6285	34	12	17	5	13
3KTW_C	-	0.40	0.40	0.43	17	4520	24	4	19	1	26
3LA5_A	Purine links to Rfam database...	0.32	0.32	0.34	11	2453	21	1	20	0	23
3NDB_M	-	0.23	0.23	0.24	14	9121	46	1	44	1	47
3NKB_B	-	0.56	0.58	0.56	15	1989	13	0	12	1	11
3NMU_E	-	0.28	0.33	0.25	2	553	12	0	6	6	4
3O58_3	5_8S_rRNA links to Rfam database...	0.22	0.26	0.19	9	12355	45	9	30	6	26
3O58_2	5S_rRNA links to Rfam database...	0.20	0.24	0.17	9	7208	44	5	38	1	29
3OVB_D	-	1.00	1.00	1.00	11	584	2	0	0	2	0
3OVS_D	-	1.00	1.00	1.00	13	548	0	0	0	0	0
3P22_G	-	1.00	1.00	1.00	12	729	5	0	0	5	0
3PDR_A	ykoK links to Rfam database...	0.66	0.61	0.72	44	12819	19	0	17	2	28
3R4F_A	-	0.92	0.92	0.92	23	2120	5	0	2	3	2
3R9X_C	-	0.69	0.70	0.70	7	585	7	0	3	4	3
3RKF_A	Purine links to Rfam database...	0.70	0.65	0.76	22	2182	7	1	6	0	12
3SD1_A	THF links to Rfam database...	0.33	0.33	0.35	14	3876	26	0	26	0	28
3SIU_F	-	0.42	0.45	0.42	5	366	7	1	6	0	6
3SN2_B	IRE_II links to Rfam database...	0.55	0.58	0.54	7	393	6	0	6	0	5
3TRZ_Z	-	-0.04	0.00	0.00	0	201	9	0	9	0	6
3TS0_U	-	1.00	1.00	1.00	6	247	2	0	0	2	0
3TS2_V	-	-0.02	0.00	0.00	0	268	9	0	8	1	5
3U4M_B	-	0.59	0.59	0.59	22	3123	15	0	15	0	15
3VJR_D	-	1.00	1.00	1.00	13	617	1	0	0	1	0
3ZEX_F	-	-0.01	0.00	0.00	0	2610	29	4	14	11	12
3ZEX_C	5_8S_rRNA links to Rfam database...	0.24	0.21	0.28	11	14156	29	3	26	0	41
3ZEX_G	-	0.00	0.00	0.00	0	16456	15	1	14	0	74
3ZEX_D	5S_rRNA links to Rfam database...	0.17	0.18	0.18	9	6970	42	4	38	0	40
3ZEX_H	-	0.14	0.18	0.12	7	8987	52	14	37	1	31
3ZND_W	tRNA links to Rfam database...	0.19	0.22	0.18	5	2975	26	1	22	3	18
4A1C_2	5_8S_rRNA links to Rfam database...	0.13	0.15	0.11	5	11735	56	10	31	15	28
4A1C_3	5S_rRNA links to Rfam database...	0.68	0.67	0.71	36	7089	17	1	14	2	18
4A4U_A	-	1.00	1.00	1.00	9	222	0	0	0	0	0
4ATO_G	-	0.30	0.30	0.33	3	519	8	0	6	2	7
4ENB_A	crcB links to Rfam database...	0.61	0.63	0.60	12	1255	8	2	6	0	7
4ENC_A	crcB links to Rfam database...	0.28	0.32	0.27	6	1304	17	2	14	1	13
4FNJ_A	-	0.83	0.81	0.87	13	580	3	0	2	1	3
4FRG_B	AdoCbl-variant links to Rfam database...	0.32	0.34	0.31	11	3450	25	0	25	0	21
4FRN_A	AdoCbl-variant links to Rfam database...	0.12	0.14	0.12	5	5110	38	1	35	2	31
4HXH_A	-	1.00	1.00	1.00	6	319	4	0	0	4	0
4JF2_A	preQ1-II links to Rfam database...	0.66	0.68	0.66	21	2818	11	0	11	0	10
4JRC_A	-	0.20	0.22	0.21	5	1516	19	0	19	0	18

^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 CentroidFold - scored higher in this pairwise comparison

1. Total counts & total scores for CentroidFold

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

Performance of MCFold - scored lower in this pairwise comparison

1. Total counts & total scores for MCFold

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