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- Title
Statistical alignment of retropseudogenes and their functional paralogs.
- Authors
Csurös, Miklós; Miklós, István
- Abstract
We describe a model for the sequence evolution of a processed pseudogene and its paralog from a common protein-coding ancestor. The model accounts for substitutions, insertions, and deletions and combines nucleotide- and codon-level mutation models. We give a dynamic programming method for calculating the likelihood of homology between two sequences in the model and describe the accompanying alignment algorithm. We also describe how ancestral codons can be computed when the same gene produced multiple pseudogene homologs. We apply our methods to the evolution of human cytochrome c.
- Publication
Molecular biology and evolution, 2005, Vol 22, Issue 12, p2457
- ISSN
0737-4038
- Publication type
Journal Article
- DOI
10.1093/molbev/msi238