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Bioinformatics Advance Access published online on February 26, 2004
Bioinformatics, doi:10.1093/bioinformatics/bth161
Bioinformatics © Oxford University Press 2004; all rights reserved
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Received June 20, 2003
Revised January 27, 2004
Accepted January 28, 2004

Applications note

GenAlyzer: interactive visualization of sequence similarities between entire genomes

Jomuna V. Choudhuri 1, Chris Schleiermacher 2, Stefan Kurtz 3*, Robert Giegerich 1

1 1Faculty of Technology, University of Bielefeld, PO Box 10 01 31, 33501 Bielefeld, Germany
2 2Artemis Pharmaceuticals, Neurather Ring 1, 51063 Köln, Germany
3 3Center for Bioinformatics, University of Hamburg, Bundesstrasse 43, 20146 Hamburg, Germany

* To whom correspondence should be addressed. E-mail: kurtz{at}zbh.uni-hamburg.de.


  Abstract

Summary: GenAlyzer is a software tool designed for the interactive visualization of sequence matches between DNA or Protein sequences. It provides visualizations on different levels of granularity, from complete overviews via zoomed regions to alignments of particular matching substrings. GenAlyzer can efficiently handle very large datasets, allowing to display tens of thousands of matches between sequences of tens of millions of bases.

Availability: GenAlyzer is available free of charge for non-commercial research institutions. For more details, see http://www.genalyzer.de.


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