Generalized affine gap costs for protein sequence alignment.

  title={Generalized affine gap costs for protein sequence alignment.},
  author={Stephen F. Altschul},
  volume={32 1},
Based on the observation that a single mutational event can delete or insert multiple residues, affine gap costs for sequence alignment charge a penalty for the existence of a gap, and a further length-dependent penalty. From structural or multiple alignments of distantly related proteins, it has been observed that conserved residues frequently fall into ungapped blocks separated by relatively nonconserved regions. To take advantage of this structure, a simple generalization of affine gap costs… CONTINUE READING
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