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Old 07-27-2014, 08:35 PM   #7
kmcarr
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Location: USA, Midwest

Join Date: May 2008
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PSI-BLAST was designed for this task. Provided a multiple sequence alignment of homologous sequences it creates a Position Specific Scoring Matrix (PSSM) which it then uses when searching a database for other potential homologs. This method is more sensitive than using a single sequence, even a consensus, because it weights more heavily the portions of the sequence which are more highly conserved.
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