Table 3

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

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


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.

Yuan and Sun BMC Bioinformatics 2013 14(Suppl 2):S25   doi:10.1186/1471-2105-14-S2-S25

Open Data