Hi Aaron, I have 3 files each containing contigs from newly sequenced genomes of one bacterial species- 33-130 contigs/genome. I ran progressive Mauve with these new sequences against our fully sequenced reference genome. The results were not so straightforward (i.e., there should have been much more alignment) so I am wondering whether Mauve is capable of aligning fragmented sequences. Also, I have noticed from my own small scale analyses that some of the contigs are in reverse orientation relative to our reference. Could this be part of the problem?
Thanks so much in advance for your advice. Best, Ashlee ------------------------------------------------------------------------- Using Tomcat but need to do more? Need to support web services, security? Get stuff done quickly with pre-integrated technology to make your job easier. Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 _______________________________________________ Mauve-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/mauve-users
