Application of suffix trees for the acquisition of common motifs with gaps in a set of strings

Pavlos Antoniou; Maxime Crochemore; Costas Iliopoulos; Pierre Peterlongo

inria-00328081, version 1

Application of suffix trees for the acquisition of common motifs with gaps in a set of strings

Pavlos Antoniou ( Auteur à contacter de préférence ) ¹, Maxime Crochemore () ², Costas Iliopoulos ¹, Pierre Peterlongo () ²

International Conference on Language and Automata Theory and Applications (2007)

Résumé : The inference of common motifs in a set of strings is a well-known problem with many applications in biological sciences. We study a new variant of this problem that oers a solution with the added exibility in the length of the common motifs to be found. We present algorithms that allow stretching of the length of the motifs as well as elasticity in the length of gaps between the motifs. The main data structure used in these algorithms is the suffix tree.

1 : Department of Computer Science (DCS)
King's College London
2 : Laboratoire d'Informatique Gaspard-Monge (LIGM)
Université Paris-Est Marne-la-Vallée (UPEMLV) – ESIEE – Ecole des Ponts ParisTech – Fédération de Recherche Bézout – CNRS : UMR8049

inria-00328081, version 1
http://hal.inria.fr/inria-00328081
oai:hal.inria.fr:inria-00328081
Contributeur : Pierre Peterlongo <>
Soumis le : Jeudi 9 Octobre 2008, 16:20:33
Dernière modification le : Lundi 13 Octobre 2008, 14:34:50

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