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18 lines
830 B
Text
18 lines
830 B
Text
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PAL2NAL is a program that converts a multiple sequence alignment of
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proteins and the corresponding DNA (or mRNA) sequences into a codon-
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based DNA alignment. The program automatically assigns the corresponding
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codon sequence even if the input DNA sequence has mismatches with the
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input protein sequence, or contains UTRs,polyA tails. It can also deal
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with frame shifts in the input alignment, which is suitable for the
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analysis of pseudogenes.
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The resulting codon-based DNA alignment can further be subjected to the
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calculation of synonymous (Ks) and non-synonymous (Ka) substitution
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rates.
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If you use PAL2NAL, please cite the following paper:
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Mikita Suyama, David Torrents, and Peer Bork (2006)
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PAL2NAL: robust conversion of protein sequence alignment into the
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corresponding codon alignments. Nucleic Acids Res. 34:W609-W612.
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