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

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, tha...

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Detalles Bibliográficos
Autores principales: Liu, Xiaowen, Wang, Lusheng
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2006
Materias:
Research
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1471791/
https://www.ncbi.nlm.nih.gov/pubmed/16722520
http://dx.doi.org/10.1186/1748-7188-1-2
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author Liu, Xiaowen
Wang, Lusheng
author_facet Liu, Xiaowen
Wang, Lusheng
author_sort Liu, Xiaowen
collection PubMed
description 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
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spelling pubmed-14717912006-05-27 Finding the region of pseudo-periodic tandem repeats in biological sequences Liu, Xiaowen Wang, Lusheng Algorithms Mol Biol Research 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 BioMed Central 2006-02-28 /pmc/articles/PMC1471791/ /pubmed/16722520 http://dx.doi.org/10.1186/1748-7188-1-2 Text en Copyright © 2006 Liu and Wang; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( (http://creativecommons.org/licenses/by/2.0) ), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research
Liu, Xiaowen
Wang, Lusheng
Finding the region of pseudo-periodic tandem repeats in biological sequences
title Finding the region of pseudo-periodic tandem repeats in biological sequences
title_full Finding the region of pseudo-periodic tandem repeats in biological sequences
title_fullStr Finding the region of pseudo-periodic tandem repeats in biological sequences
title_full_unstemmed Finding the region of pseudo-periodic tandem repeats in biological sequences
title_short Finding the region of pseudo-periodic tandem repeats in biological sequences
title_sort finding the region of pseudo-periodic tandem repeats in biological sequences
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1471791/
https://www.ncbi.nlm.nih.gov/pubmed/16722520
http://dx.doi.org/10.1186/1748-7188-1-2
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