Bioinformatics Methods and Protocols

Volume 132 of the series Methods in Molecular Biology™ pp 221-241

The Use of CLUSTAL W and CLUSTAL X for Multiple Sequence Alignment

  • Ashok AiyarAffiliated withUniversity of Wisconsin-Madison

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Multiple protein and nucleic acid sequences are aligned for two principal purposes: to identify common motifs in sequences with a conserved biological function and to identify motifs in a newly characterized sequence that may provide insight into its biological functions. This is typically performed by scanning the newly identified sequence against a database.