Cinteny is a flexible and efficient tool for analysis of synteny and evolutionary distances in terms of genome rearrangements (the reversal distance) for multiple genomes. In addition to annotated genomes, which are available for interactive browsing and assessment of synteny and evolutionary distances in terms of orthologous genes, Cinteny can be used with user provided discrete objects, such as sequence tags or other evolutionarily conserved markers.
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BMC Bioinformatics. 2007 Mar 8;8:82.
Cinteny: flexible analysis and visualization of synteny and genome rearrangements in multiple organisms.
Sinha AU1, Meller J.