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Bioinformatics Vol. 19 no. 18 2003
pages 2475-2476
© 2003 Oxford University Press

Applications Note

MREPATT: detection and analysis of exact consecutive repeats in genomic sequences

Roman Roset 1, Juan A. Subirana 2,* and Xavier Messeguer 1,3

1 Cepba-IBM Research Institute, Universitat Politècnica de Catalunya. C/Jordi Girona, 1-3, C6, 08034 Barcelona, Spain, 2 Departament d'Enginyeria Química, Universitat Politècnica de Catalunya, Av. Diagonal 647, 08028 Barcelona, Spain and 3 Algorithmics and Genetics Group, Software Department, Universitat Politècnica de Catalunya. C/Jordi Girona, 1-3, C6, 08034 Barcelona, Spain

Received on November 29, 2002 ; revised on February 7, 2003 ; accepted on June 9, 2003

We have developed a program to determine the number, length and position of exact consecutive repeats of short sequences in DNA fragments or whole genomes. The program also gives the statistical significance of results by comparing them with those expected for a random sequence generated according to a Markovian model.

Availability: MREPATT can be accessed on line at http://www.lsi.upc.es/~alggen under the RESEARCH and SEARCH links.

Contact: peypoch{at}lsi.upc.es

* To whom correspondence should be addressed.


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