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GATA | A graphic alignment tool for comparative sequence analysis

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A standalone, platform independent, graphic alignment tool for comparative sequence analysis. GATA uses the NCBI-BLASTN program and extensive post-processing to identify all small sub-alignments above a low cut-off score. These are graphed as two shaded boxes, one for each sequence, connected by a line using the coordinate system of their parent sequence. Shading and colour are used to indicate score and orientation. A variety of options exist for querying, modifying and retrieving conserved sequence elements. Extensive gene annotation can be added to both sequences using a standardized General Feature Format (GFF) file.

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GATA forum

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GATA classification

GATA specifications

Unique identifier:
OMICS_11159
Software type:
Application/Script
Restrictions to use:
None
Programming languages:
Java
Computer skills:
Medium
Stability:
Stable
Name:
Graphic Alignment Tool for comparative sequence Analysis
Interface:
Graphical user interface
Operating system:
Unix/Linux, Mac OS, Windows
License:
GNU General Public License version 2.0
Version:
0.4
Maintained:
Yes

GATA distribution

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GATA support

Maintainer

  • David Nix <>

Credits

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Publications

Institution(s)

Department of Molecular and Cell Biology, University of California, Berkeley, CA, USA; Department of Genome Science, Life Science Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA

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