I'm currently working with it on Excel

Dear Renata. One of my friends talk to me about the Arlequin software in order to establish the identity cutoff (an analysis called Pairwise Sequence Comparison, or just PASC) but this software is very tricky (my personal opinion) for that reason I use the R package, through the use of the PEGAS module, specifically the MMD function (Mismatch distribution).

Dear Renata,

You can see the phylogenetic tree and % of identity between one or more sequences with software Geneious.

http://www.geneious.com/

Thank you, Orlando!! I'll try it :)

Geneious is good one try it

I'm using Geneious, but since it's a lot of sequences I would like a software to help me to do a graphic and visualize it better, to stablish a cutoof like it was made in the paper attached. I think that the R package should do that, I'm trying to figure it out how ;) thank you, guys (sorry for my English mistakes)

The NCBI PASC (pairwise sequence comparison) tool was made for this problem: http://www.ncbi.nlm.nih.gov/pubmed/23012628

http://www.ncbi.nlm.nih.gov/sutils/pasc/viridty.cgi?textpage=overview

But you should also consider the phylogenetic tree, and other factors such as the host range of each virus.

Geneious is too expensive but want to have that software...how can i download the full version?

Hello Renata, did you make the PASC analysis?

Hi, Orlando, I did the PASC analysis, it was very helpfull! thank you!

Christian, I don't think you can unless you buy it.. use the trial version for 14 days or keep the basic version ;) I'm considering to buy it, it's expensive but I think it's worth it