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Table 2 Performance of HCudaBLAST compared to generic BLAST algorithm on Hadoop with 6M sequences (BoH: BLAST on Hadoop, HCB: HCudaBLAST)

From: HCudaBLAST: an implementation of BLAST on Hadoop and Cuda

Query length

Database hits

BoH runtime (min)

HCB runtime (min)

Speed up

1000

2943252019

16.82

10.25

1.64

2000

3560375127

17.88

12.57

1.42

3000

4298763021

19.89

14.22

1.39

4000

5878829120

22.23

18.24

1.21

5000

7112991378

25.55

20.78

1.23