How can i identify simple nucleotide polymorphism in a multiple sequences alignment?

Question

[lamond_276]

Hello, my name is Edward, I am from Peru and y actually I am study Informatic, can you help me please, I don't understand,.. How can I identify SNP's in a Multiple sequences alignment?, or which are the steps para get it?... Thanks!

[Michael]

Hi Edward,

welcome to Biostars. Unfortunately, your question is far too broad. Please edit your question and provide a reproducible example of data and methods.

Cheers

Answer 1

[h.mon]

See if snp-sites does what you want, and read this tutorial to help improve your posts.

[Istvan Albert]

A great tip, I have actually just needed a similar utility, let me also link to the paper:

SNP-sites: rapid efficient extraction of SNPs from multi-FASTA alignments, Microbial Genomics , 2016