REPuter: the manifold applications of repeat analysis on a genomic scale | Zendy

Stefan Kurtz | Zendy

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REPuter: the manifold applications of repeat analysis on a genomic scale

Author(s) -

Stefan Kurtz

Publication year - 2001

Publication title -

nucleic acids research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 9.008

H-Index - 537

eISSN - 1362-4954

pISSN - 0305-1048

DOI - 10.1093/nar/29.22.4633

Subject(s) - biology , computational biology , scope (computer science) , genomic dna , repeated sequence , genetics , sequence analysis , sequence (biology) , visualization , genome , scale (ratio) , dna , gene , computer science , artificial intelligence , programming language , physics , quantum mechanics

The repetitive structure of genomic DNA holds many secrets to be discovered. A systematic study of repetitive DNA on a genomic or inter-genomic scale requires extensive algorithmic support. The REPuter program described herein was designed to serve as a fundamental tool in such studies. Efficient and complete detection of various types of repeats is provided together with an evaluation of significance and interactive visualization. This article circumscribes the wide scope of repeat analysis using applications in five different areas of sequence analysis: checking fragment assemblies, searching for low copy repeats, finding unique sequences, comparing gene structures and mapping of cDNA/EST sequences.

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