CompaRNA - on-line benchmarks of RNA structure prediction methods

Laboratory of Structural Bioinformatics @ Adam Mickiewicz University in Poznan

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Overview

Metric	UNAFold		MCFold
MCC	0.647	>	0.522
Average MCC ± 95% Confidence Intervals	0.690 ± 0.050	>	0.599 ± 0.061
Sensitivity	0.579	>	0.535
Positive Predictive Value	0.730	>	0.516
Total TP	1741	>	1611
Total TN	350250	>	349515
Total FP	797	<	1767
Total FP CONTRA	75	<	194
Total FP INCONS	570	<	1316
Total FP COMP	152	<	257
Total FN	1268	<	1398
P-value	3.56938820447e-08

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Performance plots

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

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Performance of UNAFold - scored higher in this pairwise comparison

1. Total counts & total scores for UNAFold

Total Base Pair Counts
Total TP	1741
Total TN	350250
Total FP	797
Total FP CONTRA	75
Total FP INCONS	570
Total FP COMP	152
Total FN	1268

Total Scores
MCC	0.647
Average MCC ± 95% Confidence Intervals	0.690 ± 0.050
Sensitivity	0.579
Positive Predictive Value	0.730
Nr of predictions	131

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

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
2K5Z_A	-	0.95	0.91	1.00	10	396	0	0	0	0	1
2K63_A	-	0.95	0.90	1.00	9	397	0	0	0	0	1
2K66_A	-	0.95	0.90	1.00	9	222	0	0	0	0	1
2KD8_A	-	1.00	1.00	1.00	9	222	0	0	0	0	0
2KDQ_B	mir-TAR links to Rfam database...	0.95	0.91	1.00	10	396	0	0	0	0	1
2KE6_A	K10_TLS links to Rfam database...	0.97	0.95	1.00	18	1110	1	0	0	1	1
2KEZ_A	-	0.89	0.80	1.00	8	268	0	0	0	0	2
2KFC_A	-	-0.02	0.00	0.00	0	623	7	0	7	0	20
2KGP_A	-	1.00	1.00	1.00	9	291	1	0	0	1	0
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	-	0.83	0.69	1.00	11	692	0	0	0	0	5
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	-	0.83	0.70	1.00	7	344	0	0	0	0	3
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...	0.97	0.95	1.00	19	971	0	0	0	0	1
2LA5_A	-	0.39	0.26	0.63	5	622	3	1	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...	-0.01	0.00	0.00	0	1525	15	2	13	0	20
2LDL_A	-	0.90	0.82	1.00	9	342	1	0	0	1	2
2LDT_A	-	0.81	0.67	1.00	10	455	0	0	0	0	5
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	-	0.93	0.87	1.00	34	6071	1	0	0	1	5
2LQZ_A	-	0.85	0.82	0.90	9	341	1	1	0	0	2
2LU0_A	-	1.00	1.00	1.00	16	1160	0	0	0	0	0
2LWK_A	-	0.83	0.77	0.91	10	485	1	0	1	0	3
2M58_A	-	0.51	0.41	0.64	7	1642	4	1	3	0	10
2RP0_A	-	0.64	0.42	1.00	5	346	0	0	0	0	7
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	13	5	3	5	7
2WW9_F	-	0.59	0.60	0.60	6	290	4	0	4	0	4
2WW9_D	-	0.18	0.12	0.30	3	1943	7	3	4	0	23
2WW9_E	-	0.53	0.29	1.00	4	557	0	0	0	0	10
2WWQ_V	tRNA links to Rfam database...	0.78	0.68	0.90	19	2905	3	0	2	1	9
2XKV_B	Bacteria_small_SRP links to Rfam database...	0.47	0.45	0.50	9	4542	21	0	9	12	11
2XQD_Y	tRNA links to Rfam database...	0.88	0.78	1.00	21	2829	0	0	0	0	6
2XXA_G	Bacteria_small_SRP links to Rfam database...	0.34	0.31	0.39	13	5118	20	1	19	0	29
2Y8W_B	-	1.00	1.00	1.00	6	184	1	0	0	1	0
2Y9C_V	-	0.62	0.58	0.67	14	2257	8	1	6	1	10
2YIE_Z	-	-0.01	0.00	0.00	0	1525	15	3	12	0	12
2YIE_X	-	0.36	0.33	0.40	4	1368	6	2	4	0	8
2ZY6_A	-	0.58	0.58	0.58	7	691	5	1	4	0	5
2ZZN_D	tRNA links to Rfam database...	0.84	0.78	0.91	21	2462	2	0	2	0	6
3A2K_C	tRNA links to Rfam database...	0.42	0.39	0.46	11	2902	13	2	11	0	17
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
3DW4_A	-	0.71	0.60	0.86	6	344	1	0	1	0	4
3GCA_A	-	0.54	0.29	1.00	5	523	0	0	0	0	12
3GX2_A	SAM links to Rfam database...	0.68	0.55	0.85	22	4345	5	0	4	1	18
3HAY_E	-	0.91	0.83	1.00	15	2263	6	0	0	6	3
3HJW_D	-	0.91	0.83	1.00	15	1638	2	0	0	2	3
3IAB_R	-	0.92	0.86	1.00	12	1023	0	0	0	0	2
3ID5_D	-	0.44	0.33	0.60	3	491	5	0	2	3	6
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...	0.74	0.67	0.81	22	4251	6	0	5	1	11
3IZF_C	5S_rRNA links to Rfam database...	0.70	0.61	0.80	33	6862	8	1	7	0	21
3J0L_8	-	0.93	0.88	1.00	7	183	0	0	0	0	1
3J0L_2	-	0.25	0.24	0.26	8	6185	25	2	21	2	25
3J0L_g	-	-0.01	0.00	0.00	0	461	4	1	3	0	4
3J0L_7	-	0.48	0.41	0.58	7	1213	5	0	5	0	10
3J0L_h	-	0.75	0.60	0.93	26	6077	4	0	2	2	17
3J0L_1	-	0.70	0.58	0.85	11	1212	2	0	2	0	8
3J0L_a	-	0.51	0.50	0.53	8	1113	7	3	4	0	8
3J16_L	tRNA links to Rfam database...	0.26	0.23	0.30	7	2752	16	1	15	0	23
3J20_0	tRNA links to Rfam database...	0.43	0.40	0.48	12	2825	14	0	13	1	18
3J2L_3	5S_rRNA links to Rfam database...	0.62	0.53	0.74	28	7837	12	0	10	2	25
3J3D_C	tRNA links to Rfam database...	0.28	0.25	0.32	7	2753	15	1	14	0	21
3J3E_8	5_8S_rRNA links to Rfam database...	0.10	0.09	0.12	3	7477	32	2	21	9	30
3J3E_7	5S_rRNA links to Rfam database...	0.45	0.37	0.56	20	7104	16	1	15	0	34
3J3F_7	5S_rRNA links to Rfam database...	0.73	0.62	0.86	31	7224	6	0	5	1	19
3J3F_8	5_8S_rRNA links to Rfam database...	0.30	0.31	0.29	11	12208	41	4	23	14	25
3JYV_7	tRNA links to Rfam database...	0.22	0.19	0.29	6	2829	15	0	15	0	26
3JYX_3	5S_rRNA links to Rfam database...	0.62	0.63	0.61	17	6300	22	1	10	11	10
3JYX_4	5_8S_rRNA links to Rfam database...	0.32	0.30	0.34	10	12217	31	3	16	12	23
3KTW_C	-	0.77	0.65	0.90	28	4529	4	2	1	1	15
3LA5_A	Purine links to Rfam database...	0.78	0.62	1.00	21	2464	0	0	0	0	13
3NDB_M	-	0.84	0.74	0.96	45	9133	3	0	2	1	16
3NKB_B	-	0.59	0.54	0.67	14	1995	7	0	7	0	12
3NMU_E	-	0.54	0.50	0.60	3	556	5	0	2	3	3
3O58_3	5_8S_rRNA links to Rfam database...	0.35	0.34	0.35	12	12369	33	1	21	11	23
3O58_2	5S_rRNA links to Rfam database...	0.71	0.71	0.71	27	7222	12	4	7	1	11
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	0	0	0	0	1
3PDR_A	ykoK links to Rfam database...	0.77	0.64	0.94	46	12831	5	0	3	2	26
3R4F_A	-	0.96	0.92	1.00	23	2122	0	0	0	0	2
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...	0.64	0.52	0.79	22	3888	6	1	5	0	20
3SIU_F	-	0.85	0.73	1.00	8	370	0	0	0	0	3
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	-	0.38	0.32	0.46	12	3134	14	0	14	0	25
3VJR_D	-	0.96	0.92	1.00	12	618	0	0	0	0	1
3ZEX_G	-	0.75	0.64	0.89	47	16418	12	0	6	6	27
3ZEX_F	-	0.00	0.00	0.00	0	2617	11	2	9	0	12
3ZEX_C	5_8S_rRNA links to Rfam database...	0.24	0.21	0.28	11	14157	42	1	27	14	41
3ZEX_H	-	0.18	0.18	0.18	7	9006	32	6	26	0	31
3ZEX_D	5S_rRNA links to Rfam database...	0.77	0.65	0.91	32	6986	3	0	3	0	17
3ZND_W	tRNA links to Rfam database...	0.21	0.22	0.21	5	2979	20	1	18	1	18
4A1C_2	5_8S_rRNA links to Rfam database...	0.14	0.15	0.14	5	11745	42	5	26	11	28
4A1C_3	5S_rRNA links to Rfam database...	0.70	0.59	0.82	32	7101	7	1	6	0	22
4A4U_A	-	1.00	1.00	1.00	9	222	0	0	0	0	0
4ATO_G	-	0.32	0.30	0.38	3	520	5	1	4	0	7
4ENB_A	crcB links to Rfam database...	0.70	0.58	0.85	11	1262	2	1	1	0	8
4ENC_A	crcB links to Rfam database...	0.32	0.26	0.42	5	1314	7	1	6	0	14
4FNJ_A	-	0.79	0.63	1.00	10	585	0	0	0	0	6
4FRG_B	AdoCbl-variant links to Rfam database...	0.32	0.28	0.38	9	3462	15	0	15	0	23
4FRN_A	AdoCbl-variant links to Rfam database...	0.43	0.36	0.52	13	5126	12	2	10	0	23
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	-	0.29	0.26	0.35	6	1523	11	0	11	0	17

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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	1611
Total TN	349515
Total FP	1767
Total FP CONTRA	194
Total FP INCONS	1316
Total FP COMP	257
Total FN	1398

Total Scores
MCC	0.522
Average MCC ± 95% Confidence Intervals	0.599 ± 0.061
Sensitivity	0.535
Positive Predictive Value	0.516
Nr of predictions	131

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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
2K5Z_A	-	1.00	1.00	1.00	11	395	1	0	0	1	0
2K63_A	-	0.90	0.90	0.90	9	396	4	0	1	3	1
2K66_A	-	1.00	1.00	1.00	10	221	0	0	0	0	0
2KD8_A	-	1.00	1.00	1.00	9	222	1	0	0	1	0
2KDQ_B	mir-TAR links to Rfam database...	0.95	0.91	1.00	10	396	1	0	0	1	1
2KE6_A	K10_TLS links to Rfam database...	1.00	1.00	1.00	19	1109	2	0	0	2	0
2KEZ_A	-	0.90	0.90	0.90	9	266	1	0	1	0	1
2KFC_A	-	0.28	0.25	0.36	5	616	9	2	7	0	15
2KGP_A	-	1.00	1.00	1.00	9	291	1	0	0	1	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
2RP0_A	-	0.44	0.42	0.50	5	341	5	1	4	0	7
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_D	-	-0.01	0.00	0.00	0	1925	28	5	23	0	26
2WW9_E	-	-0.02	0.00	0.00	0	547	14	0	14	0	14
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
2ZY6_A	-	0.51	0.58	0.47	7	688	8	3	5	0	5
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
3DW4_A	-	0.90	0.90	0.90	9	341	3	0	1	2	1
3GCA_A	-	0.04	0.06	0.07	1	514	13	1	12	0	16
3GX2_A	SAM links to Rfam database...	0.47	0.48	0.48	19	4331	22	0	21	1	21
3HAY_E	-	1.00	1.00	1.00	18	2260	11	0	0	11	0
3HJW_D	-	0.94	0.94	0.94	17	1635	8	0	1	7	1
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_8	-	1.00	1.00	1.00	8	182	0	0	0	0	0
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_1	-	0.79	0.79	0.79	15	1206	6	0	4	2	4
3J0L_a	-	0.16	0.19	0.17	3	1110	15	1	14	0	13
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_8	5_8S_rRNA links to Rfam database...	0.12	0.12	0.12	4	7470	46	3	26	17	29
3J3E_7	5S_rRNA links to Rfam database...	0.40	0.39	0.42	21	7090	29	3	26	0	33
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_3	5S_rRNA links to Rfam database...	0.41	0.52	0.33	14	6285	34	12	17	5	13
3JYX_4	5_8S_rRNA links to Rfam database...	0.20	0.24	0.17	8	12199	43	16	23	4	25
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_G	-	0.00	0.00	0.00	0	16456	15	1	14	0	74
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_H	-	0.14	0.18	0.12	7	8987	52	14	37	1	31
3ZEX_D	5S_rRNA links to Rfam database...	0.17	0.18	0.18	9	6970	42	4	38	0	40
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 UNAFold - scored higher in this pairwise comparison

1. Total counts & total scores for UNAFold

2. Individual counts for UNAFold [ 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 ]