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Table 6 Results on the simulated datasets of non-challenging (l, d) instances

From: SamSelect: a sample sequence selection algorithm for quorum planted motif search on large DNA datasets

(l, d)

Conservation

T s

FMotif

T D

R D

T D

R D

Speedup

(9, 1)

High

27.6 s

8.7 s

1

0.1 s

1

< 1

Intermediate

22.8 s

7.6 s

1

0.1 s

1

< 1

Low

15.8 s

7.7 s

1

0.2 s

1.2

< 1

(11, 2)

High

21.2 s

2.1 m

1

1.1 s

1

6

Intermediate

15.4 s

2.0 m

1

0.9 s

1

7

Low

12.0 s

2.1 m

1

1.0 s

1

10

(13, 3)

High

18.2 s

18.0 m

1

11.2 s

1.2

37

Intermediate

15.0 s

18.2 m

1

10.1 s

1

43

Low

12.0 s

18.1 m

1

9.7 s

1

50

(15, 4)

High

18.2 s

3.4 h

1

1.7 m

1.2

102

Intermediate

15.0 s

3.4 h

1

1.6 m

1

111

Low

11.0 s

3.3 h

1

1.5 m

1

116

(17, 5)

High

18.0 s

37.5 h

1

15.7 m

1

141

Intermediate

15.0 s

40.6 h

1

16.3 m

1

147

Low

10.8 s

38.8 h

1

13.8 m

1

166

(19, 6)

High

21.0 s

N

N

2.9 h

1

> 17

Intermediate

16.2 s

N

N

2.3 h

1

> 21

Low

10.6 s

N

N

2.1 h

1

> 22

  1. s seconds, m minutes, h hours, N no result because the running time exceeds 48 h; T s : running time of SamSelect; T D and T D ’: running time of a qPMS algorithm on the original dataset D and the sample sequence sets D’, respectively; R D and R D ’: the rank of the implanted motif among the identified motifs obtained on D and D’, respectively; speedup: T D / T s  + T D