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Table 5 Program run time on IRMBASE 2 and DIRMBASE 1

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

Method

Average runtime on IRMBASE 2

Average runtime on DIRMBASE 1

DIALIGN-TX 1.0

4.47

9.84

DIALIGN-T 0.2.2

2.73

2.31

DIALIGN 2.2

4.98

4.82

CLUSTAL W2

1.86

1.36

T-COFFEE 5.56

26.41

365.88

POA V2

1.81

1.20

MAFFT 6.240 L-INSi

8.47

5.33

MAFFT 6.240 E-INSi

15.35

8.39

MUSCLE 3.7

6.34

4.87

PROBCONS(RNA) 1.12(1.10)

28.27

18.54

  1. Average running time (in seconds) per multiple alignment for sequence families on IRMBASE 2 and DIRMBASE 1. Program runs were performed on a Linux workstation with an 3.2 GHz Pentium 4 processor and 2 GB RAM.
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Algorithms for Molecular Biology

ISSN: 1748-7188