AliWABA: Alignment on the web through an A-Bruijn approach

Neil C. Jones, Degui Zhi, Benjamin J. Raphael

Research output: Contribution to journalArticlepeer-review

4 Scopus citations

Abstract

Multiple sequence alignment programs are an invaluable tool in computational biology. A-Bruijn Alignment (ABA) is a method for multiple sequence alignment that represents an alignment as a directed graph and has proved useful in aligning nucleotide and amino acid sequences that are composed of repeated and shuffled subsequences. AliWABA is a web server that provides tools to generate alignments with ABA, visualize the resulting ABA graphs and extract subsequences from ABA graphs. AliWABA greatly simplifies the problem of analyzing multiple sequences for local similarities that may be reordered, as is common with the domain architectures of proteins. To facilitate the analysis of protein domains, AliWABA provides direct querying of the Conserved Domain Database.

Original languageEnglish (US)
Pages (from-to)W613-W616
JournalNucleic acids research
Volume34
Issue numberWEB. SERV. ISS.
DOIs
StatePublished - Jul 2006
Externally publishedYes

All Science Journal Classification (ASJC) codes

  • Genetics

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