Hello all

I am using a published genome to develop SSR primers (secondary question: is this possible from a single published genome?). I have run MISA to identify microsatellites and their locations. I believe the next step is to use 'p3_in.pl' to convert the *.misa file to something readable for Primer3. However, when I type:

p3_in.pl myMisaFile.misa

I get an empty output and an error: Use of uninitialized value $count in concatenation (.) or string at p3_in.pl line 34, <SRC> chunk 25.

My reference genome Fasta headers are simple with no spaces, e.g. '>chr01'

Any help please

Best wishes

Clive