Please cite as: CSH Protocols; 2007; doi:10.1101/pdb.ip40

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Genetic Variation: A Laboratory Manual
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Recommended Steps for a FASTA Search

David W. Mount

Adapted from "Sequence Database Searching for Similar Sequences," Chapter 6, in Bioinformatics: Sequence and Genome Analysis, 2nd edition, by David W. Mount. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, USA, 2004.


INTRODUCTION

The following strategy is recommended for searches with FASTA for finding the most homologous sequences in a database search while avoiding false-negative matches.


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