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Old 03-24-2011, 02:53 AM   #1
not just another member
Location: Belgium

Join Date: Aug 2010
Posts: 264
Default best way to compare two (or more) genoms


I wondered what is the best way to align two genomes. My goal is to annotate a newly sequenced genome with an annotated one.


NicoBxl is offline   Reply With Quote
Old 03-24-2011, 06:16 AM   #2
Location: Saint Louis, MO

Join Date: Sep 2010
Posts: 58

I am a big fan of MAUVE:, but there are lots of other programs that do full genome alignment.

There is a presentation by Bill Pearson on the topic at:

I have heard good things about MUGSY (, but I am not sure that is the best option for your annotation needs. Plus it isn't as easy to install or work with as MAUVE.

Good luck!

shandley is offline   Reply With Quote

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