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Table 10 Run time on BALIBASE 3 and BRAliBase II

From: DIALIGN-TX: greedy and progressive approaches for segment-based multiple sequence alignment

Method

Average runtime on BALIBASE 3

Average runtime on BRAliBase II

DIALIGN-TX 1.0

33.37

0.15

DIALIGN-T 0.2.2

27.79

0.08

DIALIGN 2.2

45.41

0.09

CLUSTAL W2

8.72

0.07

T-COFFEE 5.56

315.78

1.95

POA V2

8.07

0.04

MAFFT 6.240 L-INSi

19.51

0.26

MAFFT 6.240 E-INSi

28.26

0.27

MUSCLE 3.7

10.49

0.05

PROBCONS(RNA) 1.12(1.10)

168.65

0.24

  1. Average running time (in seconds) per multiple alignment for sequence families on BALIBASE 3 and BRAliBase II. Program runs were performed on a Linux workstation with an 3.2 GHz Pentium 4 processor and 2 GB RAM.