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Finding the region of pseudo-periodic tandem repeats in biological sequences

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Author(s): Liu Xiaowen | Wang Lusheng

Journal: Algorithms for Molecular Biology
ISSN 1748-7188

Volume: 1;
Issue: 1;
Start page: 2;
Date: 2006;
Original page

ABSTRACT
Abstract Summary The genomes of many species are dominated by short sequences repeated consecutively. It is estimated that over 10% of the human genome consists of tandemly repeated sequences. Finding repeated regions in long sequences is important in sequence analysis. We develop a software, LocRepeat, that finds regions of pseudo-periodic repeats in a long sequence. We use the definition of Li et al. 1 for the pseudo-periodic partition of a region and extend the algorithm that can select the repeated region from a given long sequence and give the pseudo-periodic partition of the region. Availability LocRepeat is available at http://www.cs.cityu.edu.hk/~lwang/software/LocRepeat
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