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megamerger - Merge two large overlapping DNA sequences


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

megamerger -help


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).


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

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