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Conference Papers Year : 2000

Maximal Repetitions and Application to DNA sequences

Mathieu Giraud


In this paper we describe an implementation of Main-Kolpakov-Kucherov algorithm \cite{KolpakovKucherovFOCS99} of linear-time search for maximal repetitions in sequences. We first present a theoretical background and sketch main components of the method. We also discuss how the method can be generalized to finding approximate repetitions. Then we discuss implementation decisions and present test examples of running the programs on real DNA data.
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inria-00107854 , version 1 (19-10-2006)


  • HAL Id : inria-00107854 , version 1


Mathieu Giraud, Gregory Kucherov. Maximal Repetitions and Application to DNA sequences. Journées Ouvertes : Biologie, Informatique et Mathématiques - JOBIM'2000, 2000, Montpellier/France, pp.165--172. ⟨inria-00107854⟩
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