Hi Cristina, to help you further, it would be helpful, if you provide the error message you got as well as the type of input files you are using. And indeed, you can use prokaryotic contigs. I'm regularly align contigs in multiple fasta files (one fasta file per organism) against fasta or genbank of a reference genome. Most of the time it works straightforward. Sometimes I have to remove dashes (-) from the fasta header lines, if present.
-- Kind regards, Mathias Am 18.08.2016 6:15 nachm. schrieb "Cristina Kraemer Zimpel" < ckz7...@gmail.com>: > Hello > I wonder if can I perform progressive alignment with MAUVE using contigs > of prokaryotic genomes? > I have tried but the analysis just stops, so I think I am using the > contigs as input file incorrectly. > Can you give some light here? > Thank you so much for your time > > > ------------------------------------------------------------ > ------------------ > > _______________________________________________ > Mauve-users mailing list > Mauve-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/mauve-users > >
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