Extracting polymorphic SSR among a set of sequences

Question

[ilmagodellepcr]

Dear all,

There have been released lots of softwares or tools for extracting sets of SSR(mono, di, tri,tetra ecc..) from entire sequences (eg. MISA, IMEX ecc). But when you have a set of complete small genomes and you extracted from each one all SSRs in this way, you need to compare in silico the datasets for finding which SSR are real polymorphic.

How to do that?

Thanks in advance