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Table 3 Sensitivity, FP hits, and running time comparison between RNAv, RNATOPS, Infernal, and sub-structure.

From: Efficient known ncRNA search including pseudoknots

RNA fam ID sen FP time RNAv sen FP time RNA-TOPS sen FP time Sub-structure sen FP hits time INFER-NAL
RF00009        1.0 5 01:47:37 1.0 38 26:16:07
RF00010        0.58 95 00:18:47 0.97 318 17:54:31
RF00011        0.84 25 00:06:51 0.97 179 09:09:52
RF00023        0.4 1 00:06:54 1.0 180 13:40:31
RF00024        0.95 24 00:06:33 0.81 86 20:36:42
RF00028        0.83 6 22:30:56 0.72 37 79:05:16
RF00030        0.38 26 02:35:01 0.98 87 83:37:31
RF00041        0.95 0 00:10:37 1.0 64 01:27:52
RF00094        0.88 0 00:09:21 1.0 35 00:54:20
RF00140        0.97 0 01:05:08 1.0 33 01:52:09
RF00165     0.21 4 4 days 1.0 0 00:22:10 1.0 14 00:32:25
RF00176 1.0 58077 19:54:40     1.0 0 00:05:48 1.0 21 00:50:54
RF00216        0.87 0 00:03:03 1.0 30 04:42:29
RF00233     0.26 0 4 days 0.96 0 00:09:06 1.0 29 00:47:38
RF00259        1.0 0 00:05:41 1.0 5 02:09:52
RF00261        1.0 0 00:13:53 1.0 20 02:50:11
RF00373        0.92 27 01:35:35 0.95 363 14:15:43
RF00381     0.38 30 4 days 1.0 0 00:17:10 1.0 15 00:33:42
RF00390     1.0 763 4 days 1.0 0 00:05:21 1.0 6 00:07:35
RF00458        1.0 0 00:09:37 1.0 10 02:18:47
RF00499        1.0 0 00:09:51 1.0 115 01:33:43
RF00505     0.2 2 4 days 1.0 0 00:32:27 1.0 5 00:29:55
RF00507     0.41 7 4 days 0.95 0 00:34:44 1.0 23 00:52:44
RF00523     0.29 160 4 days 0.95 24 00:20:31 1.0 145 00:19:24
RF00622        1.0 0 00:05:15 1.0 14 00:42:40
RF01050        1.0 0 00:41:32 1.0 13 39:22:21
RF01072     0.52 273 4 days 0.96 0 00:08:37 1.0 30 00:10:13
RF01073 1.0 196631 13:13:32 0.11 3 4 days 1.0 0 00:18:36 1.0 13 00:29:04
RF01074     0.5 91 4 days 1.0 0 00:06:59 1.0 10 00:15:00
RF01075        1.0 0 00:07:59 1.0 7 01:00:46
RF01076 1.0 139249 16:20:29     1.0 0 00:20:36 1.0 5 00:35:33
RF01077        1.0 0 00:53:32 1.0 4 00:37:23
RF01078        1.0 0 00:12:38 1.0 3 00:26:04
RF01079     1.0 333 4 days 1.0 0 00:07:37 1.0 3 00:16:01
RF01080     0.5 135 4 days 1.0 0 00:08:04 1.0 110 00:13:41
RF01081     0.67 284 4 days 1.0 0 00:06:47 1.0 3 00:08:44
RF01082     0.5 2934 4 days 1.0 0 00:05:47 1.0 4 00:09:13
RF01083     1.0 3002 4 days 0.67 1 00:04:34 1.0 7 00:07:05
RF01084        1.0 0 00:10:46 1.0 8 01:53:25
RF01086        1.0 11 05:18:38 1.0 13 05:39:23
RF01087     0.5 3 4 days 1.0 0 01:19:41 1.0 12 01:37:01
RF01088        1.0 0 00:39:09 1.0 4 00:37:14
RF01089     0.33 1 4 days 1.0 3 01:03:09 1.0 20 01:21:27
RF01090     0.43 4 4 days 1.0 0 00:23:11 1.0 8 00:36:35
RF01091        1.0 0 00:13:06 1.0 4 00:28:51
RF01092 1.0 165990 10:58:02 1.0 0 4 days 1.0 0 00:17:57 1.0 15 00:30:08
RF01093     0.42 67 4 days 1.0 0 00:13:59 1.0 23 00:29:56
RF01094        1.0 0 00:52:46 1.0 3 01:10:47
RF01095        1.0 0 00:10:56 1.0 2 00:27:12
RF01096 1.0 166314 16:44:20 0.5 1 4 days 1.0 0 00:23:04 1.0 2 00:24:45
RF01097     0.25 1 4 days 1.0 0 00:12:18 1.0 4 00:22:09
  1. Bold font is applied to the highest sensitivity, the lowest FP hit, or the shortest running time for each RNA family. The empty cells indicate that the corresponding tools did not generate any output within 4 CPU days.
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