Install the plugin by downloading the gplugin file and dragging it in to Geneious or use the plugin manager in Geneious (under Tools - Plugins in the menu).
Once installed, run the plugin by selecting a nucleotide alignment and choosing Annotate & Predict - Find Polymorphic SSRs from the menu. Results are saved as annotations on the sequences.
Before running the plugin you will need to set The Phobos executable to point to your copy of Phobos. Phobos must be downloaded from the official website. Commercial users require a license from the author.
Mayer, Christoph, Phobos 3.3.11, 2006-2010,