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RepeatAnalyzer is a tool to store, manage, and analyze short sequence repeats (SSRs) to identify strains. The RepeatAnalyzer uses Anaplasma marginale as a model species, but the tool can analyze any SSRs in any species. The RepeatAnalyzer algorithm uses regional genetic diversity as a part of analyses and has functions for visualizing genotype and SSR distributions.


Population genetics; Mapping; Metagenomics


  • Operation: Repeat sequence detection
  • Software interface: Command-line user interface
  • Language: Python
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: GNU General Public License v3
  • Cost: Free
  • Version name: -
  • Credit: The School of Electrical Engineering and Computer Science, Washington State University, NSF CAREER award
  • Contact: assefaw _at_
  • Collection: -


Catanese HN, Brayton KA, Gebremedhin AH "RepeatAnalyzer: a tool for analysing and managing short-sequence repeat data." BMC Genomics. 2016 Jun 3;17:422.
PMID: 27260942
PMCID: PMC4891823

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