Multiple sequence alignment: Difference between revisions

Revision as of 03:16, 30 April 2006

Revision as of 18:53, 30 April 2006

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The production of a protein sequence alignment is also a necessary step for the study of the [[phylogeny]] of a protein family.

==Multiple Sequencesequence Alignmentalignment programs and techniques==

A common approach for multiple sequence alignment is to progressively align pairssequences using a guide tree. Initially, each sequence at the leaves is represented as a trivial alignment of sequencesa single sequence. FirstThen, twoat sequenceseach areinternal selectednode, andthe alignments at its children are alignedmerged togetherinto an alignment of the alignments. At the end, andthe thenroot thiscontains an alignment ison usedall tothe alignsequences. eachThis subsequentis sequencescalled ''progressive alignment''.

There are many computer programs to produce multiple sequence alignments starting with a collection of unaligned sequences ([[Clustal|ClustalW]], [[T-Coffee]]) and to represent graphically those alignments ([[Clustal|ClustalW]], [http://www.sanger.ac.uk/Software/Pfam/help/belvu_setup.shtml Belvu]).