Welcome to SNP Discovery Primer Design and SNP/InDel Finder

The SNP Discovery Primer Design program designs primers for finding potential SNPs, returning only primers that have not been previously discovered.

The SNP/InDel Finder program calculates base frequencies in each position of a sequence alignment and searches for gaps in a sequence alignment representing InDels.

How to use it

It is easy to use, just follow the user help instructions contained in the included README files

What Hardware and Software do you need?

dSNP Primer Designer consists of a Perl script and as such requires a Perl-compatible operation system to function. dSNP Primer Designer is been developed and tested on UNIX-based systems.

The functionality of dSNP Primer Designer requires the use of the external application Primer3

  • Primer3 was developed at the Whitehead_Institute and Howard Hughes Medical Institute and can be found here: Primer3

Please view the MMP Software Release Policy before downloading any software.

To download the software click on