Dear support group,
I am trying to align 15 genomes of Campylobacter jejuni that belong to
different sequence types and therefore vary in their similarity to each
other. I would like to use the resulting xmfa to create a SuperGenome of all
15 genomes. However, the coordinate space of some genomes doesn't seem to
make sense (e.g. space is longer than the genome, or negative coordinates).
Which parameters would I have to change to get a more sensible alignment of
the 15 genomes? Any help would be appreciated.
Kind regards,
Anja
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