The Database comprises SSR markers mined from whole genome data of Mycogone perniciosa strain MgR1. Mycogone perniciosa, the causal agent of Wet Bubble Disease (WBD), is an important pathogen especially in button mushroom. We have generated data on microsatellite (Simple Sequence Repeat (SSR)) in Mycogone perniciosa strain MgR1. This pathogen is of great interest to us in mushroom cultivation because sometime it cause complete crop failure.. The data we present were generated at ICAR- Directorate of Mushroom Research, Chambaghat, Solan, HP. SSRs, also known as microsatellites, are tandem repeated motifs of 1-6 bases and serve as the most important molecular markers in population and conservation genetics, molecular epidemiology and pathology, and gene mapping. SSRs were detected using MIcroSAtellite Identification Tool (MISA v1.0) from assembled scaffolds. The potential SSRs were identified as ranging from mono motif with ten repeats, dinucleotide motifs with a minimum of six repeats, tri, tetra, penta and hexa nucleotide motifs with a minimum of five repeats. From the 1,597 scaffolds examined for MgR1 sample, 3,681 SSRs were identified. The availability of well-assembled genome sequences and reduced sequencing costs will enable the sequencing of many new strains, thus facilitating the rapid discovery and development of simple sequence repeat (SSR) markers. The generated information in this study will be useful in understanding the pathogen biology and provides basis for studies on disease development and host-pathogen interaction. The SSR markers could be useful for mapping M. perniciosa pathotypes that infect mushrooms in different growing states in India and elsewhere.