An exploratory algorithm to identify intra-host recombinant viral sequences.

  title={An exploratory algorithm to identify intra-host recombinant viral sequences.},
  author={Marco Salemi and Rebecca R. Gray and Maureen Michels Goodenow},
  journal={Molecular phylogenetics and evolution},
  volume={49 2},
Since recombination leads to the generation of mosaic genomes that violate the assumption of traditional phylogenetic methods that sequence evolution can be accurately described by a single tree, results and conclusions based on phylogenetic analysis of data sets including recombinant sequences can be severely misleading. Many methods are able to adequately detect recombination between diverse sequences, for example between different HIV-1 subtypes. More problematic is the identification of… CONTINUE READING

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