Difference between revisions of "Local alignment"

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(Created page with 'Local-local alignment is best for detecting remote homologs and identifying evolutionary conserved domains. The matches may have variable lengths and share only partial similarit...')
 
 
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Local-local alignment is best for detecting remote homologs and identifying evolutionary conserved domains. The matches may have variable lengths and share only partial similarity to the query sequence in any position. It is a default protocol of BLAST and PSI-BLAST.
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Local alignment algorithms only aligns the most similar regions between sequences. [http://www.wikipedia.org/wiki/Smith-Waterman_algorithm Smith-Waterman] algorithm, a variation of Needleman Wunsch algorithm, is often used for local alignments. Unlike global alignment, only sub-region of sequences is aligned in local alignment.

Latest revision as of 18:16, 28 September 2009

Lcs.png

Local alignment algorithms only aligns the most similar regions between sequences. Smith-Waterman algorithm, a variation of Needleman Wunsch algorithm, is often used for local alignments. Unlike global alignment, only sub-region of sequences is aligned in local alignment.