The purpose of this study was to mine the simple sequence repeats (SSRs) in expressed sequence tags (ESTs) of banana (Musa spp.). We retrieved 31,066 EST sequences of Musa spp. belonging to different tissues and conditions from dbEST of National Centre for Biotechnology Information. These were made into 4,526 contigs as well as 9596 singletons using sequence assembly program CAP3. SSRs were located by using a MISA perl script, and were classified based on size of repeat and type of the repeating motif. A total of 2,659 SSR sites were observed and 2308 primer pairs were designed. Mononucleotide repeats (44%) were found to be more abundant followed by dinucleotide (23%) and trinucleotide (21%). We annotated the EST contigs and found skp1, putative 60S ribosomal protein L39, DET2, histone H1, GSK1 (gsk3/shaggy-like protein kinase 1), heat shock protein 70, phagocytosis and cell motility protein ELMO1, universal stress protein family as functions encoded. A database was constructed and made available at http://www.riju.byethost31.com/banana/ giving the results of SSRs and primers from the study.