BMC Bioinformatics

Table 3 SP scores for ClustalW, T-Coffee, MSAM and MSAM-H on substitution rates of 0.3

From: Simultaneous phylogeny reconstruction and multiple sequence alignment

subrate	l = 200		l = 400		l = 800		l = 1000
indel	0.001	0.005	0.001	0.005	0.001	0.005	0.001	0.005
Clustal	0.305	0.212	0.221	0.148	0.219	0.130	0.201	0.137
T-Coffee	0.187	0.176	0.128	0.118	0.132	0.092	0.137	0.110
POY	0.423	0.209	0.114	0.062	0.228	0.119	0.145	0.041
MSAM-H	0.315	0.203	0.213	0.149	0.225	0.113	0.178	0.132
MSAM	0.359	0.219	0.234	0.154	0.240	0.132	0.211	0.141

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ISSN: 1471-2105

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