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BAliBASE | A benchmark alignment database for the evaluation of multiple alignment programs


Provides high quality reference alignments based on 3D structural superpositions. BAliBASE is a large scale benchmarks specifically designed for multiple sequence alignment. The alignment test cases are manually refined to ensure the correct alignment of conserved residues. The alignments are organized into reference sets designed to represent real multiple alignment problems.

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BAliBASE classification

BAliBASE specifications

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BAliBASE support


  • Olivier Poch <>


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Departement de Biologie et Genomique Structurales, Institut de Genetique et de Biologie Moléculaire et Cellulaire, CNRS/INSERM/ULP, Illkirch, France; Genome Center and Department of Computer Science, University of California, Davis, CA, USA

Funding source(s)

This project was funded by the Institut National de la Sante et de la Recherche Médicale; the Centre National de la Recherche Scientifique; the Hopital Universitaire de Strasbourg; the Fond National de la Science (GENOPOLE) and the SPINE project grant No. QLG2-CT-2002-00988.

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