The University of Arizona
AGCoL SyMAP - Synteny Mapping and Analysis Program
SyMAP (Synteny Mapping and Analysis Program) is a software package for detecting, displaying, and querying syntenic relationships between sequenced genomes.

 It is designed for medium-to-high divergent eukaryotic genomes (not bacteria).
 It can align a draft genome to a fully sequenced genome (see peach), but not draft-to-draft.
 It can perform self-synteny. It can align to FPC physical maps.

  Releases v5.1.0 and later are available from the Github links below.

Github Download
  - executable and demo files
Github Documentation
  SyMAP Main Page
  System Guide - Build synteny
  User Guide - View synteny
  v5.0.8 - Old release
This project was partially supported by the National Research Initiative of USDA's National Institute of Food and Agriculture, grant #0214643.
All upgrades starting with release 7-Nov-2016 have been developed by CAS without funding.


C. Soderlund, M. Bomhoff, and W. Nelson (2011) SyMAP v3.4: a turnkey synteny system with application to plant genomes Nucleic Acids Research 39(10):e68 Link

C. Soderlund, W. Nelson, A. Shoemaker and A. Paterson (2006) SyMAP: A system for discovering and viewing syntenic regions of FPC maps. Genome Research 16:1159-1168. Link

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