Table 3 Scalability of our algorithm for up to 128 million reads. Since our test dataset contained only 8 million reads, we generated these reads randomly, each read was of size 35 and k = 33 was used.

16777216

2

37147

259

1:14.02

33554432

2

148070

1219

2:42.66

67108864

2

340653

2348

6:18.77

134217728

2

770922

5560

15:00.42

16777216

4

37254

85

0:38.95

33554432

4

99067

677

1:48.60

67108864

4

240861

1931

4:14.57

134217728

4

471196

4272

8:29.62

16777216

8

20217

57

0:21.90

33554432

8

47319

322

0:55.41

67108864

8

153782

1781

2:39.18

134217728

8

314281

3456

5:17.65

16777216

16

16951

55

0:19.73

33554432

16

17936

135

0:25.64

67108864

16

64408

804

1:10.91

134217728

16

135562

2148

2:21.83

16777216

32

12901

40

0:16.38

33554432

32

9973

191

0:17.55

67108864

32

46659

486

0:53.32

134217728

32

82414

950

1:28.87