Journal
BIOINFORMATICS
Volume 23, Issue 13, Pages 1686-1688Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btm136
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We present a software tool CTX-BLAST that incorporates contextual alignment model into the popular protein BLAST program. Our alignment tool allows us to investigate the effect of context-dependency in the protein alignment much more efficient than using previous dynamic algorithms. The software makes use of non-symmetric contextual substitution tables and calculates the statistical significance of a given alignment according to the contextual statistical model.
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