Hi Sergios, this is another tool that you can use, I hope that helps. https://mjsull.github.io/Easyfig/

Thanks, Ignacio. I will try it out.

Hi Sergios,

Mauve is the best tool for the type of analysis you're looking at. Try reinstalling mauve (mauve must be able to handle the genomic data you are working with).

If the problem persists, try using SimpleSynteny (Web based tool) or Easy fig 2.2.2 (As mentioned by Ignacio Vasquez )

Thank you Chanakya Pachi Pulusu The limitation with SimpleSynteny is that it accepts only up to 10 “genomes” with up to 10 contigs. I have fully annotated genomes with hundreds of features.

Hi Sergios

For full genomic comparative study, you may use Artemis, it can help you perfectly

Hi Fady Abdelmalek

Artemis is a great genome browser, but not an alignment software. Thanks.