Color-coding reveals tandem repeats in the Escherichia coli genome

Tetsuhiko Yoshida, Nobuaki Obata, Kenji Oosawa

Research output: Contribution to journalArticlepeer-review

12 Citations (Scopus)

Abstract

Genomic DNA contains a wide variety of repetitive sequences. In Escherichia coli, there have been several classes of repetitive sequences reported, some of which cluster as tandem repeats. We propose a novel method for analyzing symbolic sequences by two-dimensional pattern formation with color-coding. We applied this method for searching tandem repeats in the E. coli genome and found approximately 50 repeats with periods longer than 30 bases. The longest repeat has a period of 1267 bases. (C) 2000 Academic Press.

Original languageEnglish
Pages (from-to)343-349
Number of pages7
JournalJournal of Molecular Biology
Volume298
Issue number3
DOIs
Publication statusPublished - 2000 May 5

Keywords

  • Color-coding
  • Genome
  • Periodicity
  • Sequence analysis
  • Tandem repeat

ASJC Scopus subject areas

  • Structural Biology
  • Molecular Biology

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