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Table 2 Average Q scores on the HOMSTRAD database (Pairwise only).

From: MTRAP: Pairwise sequence alignment algorithm by a new measure based on transition probability between two consecutive pairs of residues

Method

HOMSTRAD (Pairwise only)

 

0-15%(25)

15-30%(207)

30-45%(173)

All(630)

CPU

MTRAPa

0.412

0.659

0.879

0.819

45

MAFFT

0.309

0.610

0.863

0.796

60

DIALIGNb

0.216

0.546

0.825

0.760

35

MUSCLE

0.337

0.625

0.868

0.802

15

ClustalW2

0.313

0.619

0.867

0.800

25

Probcons

0.344

0.650

0.884

0.816

50

Probalign

0.325

0.649

0.886

0.818

40

TCoffee

0.341

0.634

0.872

0.809

70

TCoffee-Lu/Sze

0.347

0.649

0.879

0.815

100

  1. The average Q scores of four testing datasets with different identity ranges on HOMSTRAD are shown. The notations are the same as Table 1.
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BMC Bioinformatics

ISSN: 1471-2105

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