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       supermatcher - Calculate approximate local pair-wise alignments of larger sequences


       supermatcher -asequence seqall -bsequence seqset [-datafile matrixf] [-minscore float]
                    -gapopen float -gapextend float [-width integer] [-wordlen integer]
                    -outfile align [-errorfile outfile]

       supermatcher -help


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


   Input section
       -asequence seqall

       -bsequence seqset

       -datafile matrixf
           This is the scoring matrix file used when comparing sequences. By default it is the
           file 'EBLOSUM62' (for proteins) or the file 'EDNAFULL' (for nucleic sequences). These
           files are found in the 'data' directory of the EMBOSS installation.

       -minscore float
           Minimum alignment score to report an alignment.

   Required section
       -gapopen float
           Default value: @($(acdprotein)? 10.0 : 10.0)

       -gapextend float
           Default value: @($(acdprotein)? 0.5 : 0.5)

   Additional section
       -width integer
           Default value: 16

       -wordlen integer
           Default value: 6

   Output section
       -outfile align

       -errorfile outfile
           Error file to be written to for failed alignments Default value: supermatcher.error


       Bugs can be reported to the Debian Bug Tracking system (, or
       directly to the EMBOSS developers


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


       Debian Med Packaging Team <>
           Wrote the script used to autogenerate this manual page.


       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.