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NAME

       wordmatch - Finds regions of identity (exact matches) of two sequences

SYNOPSIS

       wordmatch -asequence seqset -bsequence seqall -wordsize integer
                 [-dumpalign toggle] -outfile align [-logfile outfile]
                 [-dumpfeat toggle] -aoutfeat featout -boutfeat featout

       wordmatch -help

DESCRIPTION

       wordmatch is a command line program from EMBOSS (“the European
       Molecular Biology Open Software Suite”). It is part of the
       "Alignment:Local" command group(s).

OPTIONS

   Input section
       -asequence seqset

       -bsequence seqall

   Required section
       -wordsize integer
           Default value: 4

   Output section
       -dumpalign toggle
           Default value: Y

       -outfile align

       -logfile outfile
           Statistics on distribution of kmers and matches Default value:
           wordmatch.log

       -dumpfeat toggle
           Default value: Y

       -aoutfeat featout

       -boutfeat featout

BUGS

       Bugs can be reported to the Debian Bug Tracking system
       (http://bugs.debian.org/emboss), or directly to the EMBOSS developers
       (http://sourceforge.net/tracker/?group_id=93650&atid=605031).

SEE ALSO

       wordmatch is fully documented via the tfm(1) system.

AUTHOR

       Debian Med Packaging Team
       <debian-med-packaging@lists.alioth.debian.org>
           Wrote the script used to autogenerate this manual page.

COPYRIGHT

       This manual page was autogenerated from an Ajax Control Definition of
       the EMBOSS package. It can be redistributed under the same terms as
       EMBOSS itself.



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