FAN: fingerprint analysis of nucleotide sequences
School of Biological Sciences and Department of Computer Science, University of Manchester, Manchester M13 9PT, UK
* To whom correspondence should be addressed. Tel: +44 161 275 5980; Fax: +44 161 275 5082; Email: neil{at}bioinf.man.ac.uk
Received February 12, 2004; Revised April 18, 2004; Accepted April 26, 2004
FAN is a server for fingerprint analysis of nucleotide sequences. The server performs a search of submitted nucleotide sequences against the PRINTS database. Searches are performed directly against fingerprints using a codon position specific score matrix (PSSM) approach. The advantages of this approach are increased specificity for coding sequence (CDS) over non-CDS, and increased tolerance to base-substituting and frameshifting sequence errors. Furthermore, there is no need for prior translation of the nucleotide sequences. A web-based interface to the software is available at http://bioinf.man.ac.uk/cgi-bin/neil/ntfront.pl.
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