Keith, Mauve itself align sequences as fasta, so when re-ordering contigs the annotations are lost. When possible, I always recommend ordering the contigs before annotation, but I realize that is not always possible. For contigs that are not reverse complemented during the process you can reorder the original .gbk file manually to reflect the final order, but you need to use some other solution for any “flipped” contigs. These days I use DNASTAR’s SeqNinja, but there are likely other tools out there — perhaps someone else can chime in.
Cheers, Guy Dr. Guy Plunkett III Senior Scientist, Genome Center of Wisconsin Senior Scientist, DNASTAR, Inc. http://www.genome.wisc.edu/information/gplunkett.html On May 25, 2016, at 5:39 AM, Keith Yamada <keith.t.yam...@utu.fi> wrote: > Hello, > > Is there anyway Mauve can order my contigs in genbank format and keep them in > .gbk format instead of converting it to a .fasta file? I would like to view > my draft genome annotations when I compare it to other genomes. > > Cheers, > Keith > > ------------------------------------------------------------------------------ > Mobile security can be enabling, not merely restricting. Employees who > bring their own devices (BYOD) to work are irked by the imposition of MDM > restrictions. Mobile Device Manager Plus allows you to control only the > apps on BYO-devices by containerizing them, leaving personal data untouched! > https://ad.doubleclick.net/ddm/clk/304595813;131938128;j_______________________________________________ > Mauve-users mailing list > Mauve-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/mauve-users
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