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Table 3 Swellix Computations of Longer RNA Sequences

From: Swellix: a computational tool to explore RNA conformational space

Sequence

Minimum Helix Length

Nucleotides

Components

Bundles

Structures

Runtime (s)

MicA

5

50

9

9

22

27.45

tRNA asp 7

5

71

31

14

271

43.61

tRNA RG1600

5

74

22

12

254

14.51

tRNA 1EHZ

5

76

36

11

314

21.02

GA1 pRNA

5

161

154

26

417,535

29.43

SF5 pRNA

5

167

206

31

2,679,059

54.09

M2 pRNA

5

171

185

31

2,988,931

60.79

phi29 pRNA

5

174

270

57

47,596,862

200.28

Azoarcus gr. I intron

5

197

173

32

3,020,337

30.11

Tetrahymena gr. I intron

5

247

247

35

105,405,879

285.49

  1. Swellix computations were run with the parallelized bundling option on the Blue Waters computer. The sequences are those in Table 1 as well as 4 prohead RNA sequences [44] and 2 group I intron sequences [45]