Difference between revisions of "Local alignment"

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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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[[Image:lcs.png|thumb|500px|right]]
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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.

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