A clustering method for repeat analysis in DNA sequences

  title={A clustering method for repeat analysis in DNA sequences},
  author={Natalia Volfovsky and Brian J. Haas and Steven L Salzberg},
  journal={Genome Biology},
  pages={research0027.1 - research0027.11}
A computational system for analysis of the repetitive structure of genomic sequences is described. The method uses suffix trees to organize and search the input sequences; this data structure has been used previously for efficient computation of exact and degenerate repeats. The resulting software tool collects all repeat classes and outputs summary statistics as well as a file containing multiple sequences (multi fasta), that can be used as the target of searches. Its use is demonstrated here… CONTINUE READING
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