OCPAT: an online codon-preserved alignment tool for evolutionary genomic analysis of protein coding sequences.

ABSTRACT:

Background

Rapidly accumulating genome sequence data from multiple species offer powerful opportunities for the detection of DNA sequence evolution. Phylogenetic tree construction and codon-based tests for natural selection are the prevailing tools used to detect functionally important evolutionary change in protein coding sequences. These analyses often require multiple DNA sequence alignments that maintain the correct reading frame for each collection of putative orthologous sequences. Since this feature is not available in most alignment tools, codon reading frames often must be checked manually before evolutionary analyses can commence.

Results

Here we report an online codon-preserved alignment tool (OCPAT) that generates multiple sequence alignments automatically from t

SUBMITTER: Liu G 

PROVIDER: S-EPMC2093931 | biostudies-literature | 2007 Sep

REPOSITORIES: biostudies-literature