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

Roman Roset; Juan A Subirana; Xavier Messeguer

doi:10.1093/bioinformatics/btg326

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

Bioinformatics. 2003 Dec 12;19(18):2475-6. doi: 10.1093/bioinformatics/btg326.

Authors

Roman Roset¹, Juan A Subirana, Xavier Messeguer

Affiliation

¹ Cepba-IBM Research Institute, Universitat Politècnica de Catalunya. C/Jordi Girona, 1-3, C6, 08034 Barcelona, Spain.

PMID: 14668235
DOI: 10.1093/bioinformatics/btg326

Abstract

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.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Algorithms
Chromosome Mapping / methods*
Gene Expression Profiling / methods*
Genomics / methods
Repetitive Sequences, Nucleic Acid / genetics*
Sequence Alignment / methods*
Sequence Analysis, DNA / methods*
Sequence Homology, Nucleic Acid
Software Design
Software*