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etandem

etandem

etandem is a tool to find tandem repeats in DNA sequences. The tandem algorithm computes consensus sequences and scores them using +1 for each match and -1 for each mismatch. The tool accepts A, C, G, T, and N characters as input and uses non-overlapping windows to search putative repeated sequence stretches.

Topic

Sequence composition, complexity and repeats

Details

  • Operation: Repeat sequence detection
  • Input: Nucleic acid record
  • Output: .etandem; r-format table
  • Software interface: Command-line user interface
  • Language: C
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: GNU GPL v3
  • Cost: Free
  • Version name: 6.x
  • Maturity: Mature
  • Credit: -
  • Contact: emboss _at_ emboss.open-bio.org;emboss _at_ emboss.open-bio.org;emboss-bug _at_ emboss.open-bio.org
  • Collection: EMBOSS

Publications

Rice P, Longden I, Bleasby A "EMBOSS: the European Molecular Biology Open Software Suite." Trends Genet. 2000; 16(6):276-7 https://doi.org/10.1016/s0168-9525(00)02024-2
PMID: 10827456


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