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© IRL Press Limited

DNAid: a Macintosh full screen editor featuring a built-in regular expression interpreter for the search of specific patterns in biological sequences using finite state automata

Frédéric Dardel and Pierre Bensoussan

Laboratoire de Biochimie, UA 240 du CNRS, Ecole Polytechnique 91128 Palaiseau cedex, France

DNAid is a full screen and multi-window sequence editor designed as an aid for the easy manipulation of DNA and protein sequences on Macintosh computers. In addition to the classical editing capabilities, powerful analysis and search functions are available from within the editor. Restriction mapping, translation and alignment of homologous sequences are supported by DNAid, furthermore a pattern matching language is included which allows searches for user-defined strict or fuzzy signals within biological sequences. Patterns are translated into finite state automata which allow very efficient searches.

Received on May 24, 1988; accepted on June 3, 1988

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