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Table 4 Overall execution time (in seconds) of MSAIndelFR and other multiple alignment algorithms using the benchmarks, BAliBASE 3.0, OXBENCH, PREFAB 4.0 and SABmark 1.65

From: MSAIndelFR: a scheme for multiple protein sequence alignment using information on indel flanking regions

MSA algorithm

BAliBASE

OXBENCH

PREFAB

SABRE

MSAIndelFR

(131.63)

(9.38)

(35.59)

(6.51)

MSAProbs

1323.47

14.9

44.49

17.52

MAFFT

1270.66

333.58

1511.83

155.37

MUSCLE

665.11

94.35

28.92

60.58

Clustal Omega

199.86

12.07

40.7

10.13

Kalign2

32.74

7.54

32.9

3.66

Clustal W2

769.35

12.55

35.69

10.69

ProbCons

7526

45.22

76.90

65.10

Probalign

4623

25.40

58.38

30.59

  1. Bold faced values indicate the best performance, while the values in parentheses indicate the second best performance
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BMC Bioinformatics

ISSN: 1471-2105

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