Hi Ahmad, I suggest using Mauve Contig Mover and looking at the .tab output file. The contigs you see in that table (or don't see) might be useful.
Best, -Aaron On Thu, 2015-11-05 at 19:14 -0600, Ahmad Rajeh wrote: > Hello, > > I'm using Mauve to map assembled contigs of s.pombe back to the > reference. I'm interested in studying regions that did not map back to > the genome as they could be insertions in the genome of the assembled > strain or deletions in the reference. > > > > The "Export Gaps" option only gives me the coordinates of the gaps in > the contigs that had alignments. If I click on the alignment summary > it tells me that there are 334 extra contigs. Is there a way to > extract these contigs that did not map, or at least get their names? > > > > > I would appreciate your help. > > > Thanks, > > Ahmad > > > > > > ------------------------------------------------------------------------------ > _______________________________________________ > Mauve-users mailing list > Mauve-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/mauve-users -- Aaron E. Darling, Ph.D. Associate Professor, ithree institute University of Technology Sydney Australia http://darlinglab.org twitter: @koadman UTS CRICOS Provider Code: 00099F DISCLAIMER: This email message and any accompanying attachments may contain confidential information. If you are not the intended recipient, do not read, use, disseminate, distribute or copy this message or attachments. If you have received this message in error, please notify the sender immediately and delete this message. Any views expressed in this message are those of the individual sender, except where the sender expressly, and with authority, states them to be the views of the University of Technology Sydney. Before opening any attachments, please check them for viruses and defects. Think. Green. Do. Please consider the environment before printing this email.
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