NAME

       megamerger - Merge two large overlapping DNA sequences

SYNOPSIS

       megamerger -asequence sequence -bsequence sequence -wordsize integer [-prefer boolean] -outseq seqout
                  -outfile outfile

       megamerger -help

DESCRIPTION

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

OPTIONS

   Input section
       -asequence sequence

       -bsequence sequence

   Required section
       -wordsize integer
           Default value: 20

   Additional section
       -prefer boolean
           When a mismatch between the two sequence is discovered, one or other of the two sequences must be
           used to create the merged sequence over this mismatch region. The default action is to create the
           merged sequence using the sequence where the mismatch is closest to that sequence's centre. If this
           option is used, then the first sequence (seqa) will always be used in preference to the other
           sequence when there is a mismatch. Default value: N

   Output section
       -outseq seqout

       -outfile outfile

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

       megamerger 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.

EMBOSS 6.4.0                                       05/11/2012                                     MEGAMERGER(1e)