ChloroMitoSSRDB 2.00 Webserver cum Database of Cholorplast and Mitochondrial Microsatellites

Welcome to ChloroMitoSSRDB 2.0

ChloroMitoSSRDB 2.0 is a comprehensive online database of all SSRs (Simple Sequence Repeats) or STRs (Short Tandem Repeats) or Microsatellites from all sequenced Chloroplast and Mitochondrial genomes available so far across all the clades of life. SSRs are considered as important genomic elements and play a major role in the understanding the underpinnings of the evolution, linkage analysis and species discrimination. ChloroMitoSSRDB 2.0 provides a wide accessible platform for accessing the microsatellites patterns using the IMEx (Imperfect Microsatellite Extractor) and MISA and along with the primer pair information for the same. Additionally, the present version of the web-servers also allows the users to analyze the whole genome, genes and also NGS reads for the identification of the SSRs.

Quick Search

Repeat Type:
Repeat Size:


Total Genomes:
4,454 Genomes
Cholorplast Genomes:
370 Genomes
Mitochondrial Genomes:
4,084 Genomes
IMEx Perfect SSRs:
40,653 Repeats
IMEx Imperfect SSRs:
275,981 Repeats
MISA Perfect SSRs:
35,250 Repeats
MISA Compound SSRs:
3,211 Repeats

Chloroplast SSRs

Get All Chloroplast SSRs

Mitochondrial SSRs


Latest News

15 Sep 2014:
New Modules - NGS SSR Extraction & On-the-Fly Extraction using IMEx, MISA & REPUTER have been added to ChloroMitoSSRDB Version 2.0.
10 Sep 2014:
ChloroMitoSSRDB Version 2.0 has been released with new genomes & SSR data.
2 Jan 2014:
ChloroMitoSSRDB paper has been published in Oxford University Press Journal "DNA Research" (Impact Factor: 5.1).
1 Nov 2013:
ChloroMitoSSRDB indexed in Genome Database Repository of GARNET Community.
12 Oct 2013:
License form for downloading ChloroMitoSSRDB has been added to Contact page.
12 Oct 2013:
ChloroMitoSSRDB motif based summary information has been added.
12 June 2013:
Advanced Search Mode to filter repeats based on user criteria has been added.
26 May 2013:
Graphical Visualization Module has been added.
23 May 2013:
ChloroMitoSSRDB 1.0 launched on 23rd May 2012.