merger(1) Merge two overlapping sequences


merger -asequence sequence -bsequence sequence [-datafile matrixf] [-gapopen float] [-gapextend float] -outfile align -outseq seqout
merger -help



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


Input section

-asequence sequence

-bsequence sequence

-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.

Additional section

-gapopen float

Default value: @($(acdprotein)? 50.0 : 50.0 )

-gapextend float

Default value: @($(acdprotein)? 5.0 : 5.0)

Output section

-outfile align

-outseq seqout


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


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.