A probabilistic measure for alignment-free sequence comparison

@article{Pham2004APM,
  title={A probabilistic measure for alignment-free sequence comparison},
  author={Tuan D. Pham and Johannes Zuegg},
  journal={Bioinformatics},
  year={2004},
  volume={20 18},
  pages={3455-61}
}
MOTIVATION Alignment-free sequence comparison methods are still in the early stages of development compared to those of alignment-based sequence analysis. In this paper, we introduce a probabilistic measure of similarity between two biological sequences without alignment. The method is based on the concept of comparing the similarity/dissimilarity between two constructed Markov models. RESULTS The method was tested against six DNA sequences, which are the thrA, thrB and thrC genes of the… CONTINUE READING
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