Figure 1.

Theoretical gain in speed from performing a translated alignment. The figure reveals there is always a performance advantage in aligning any given proportion of the protein-coding DNA sequences in a data set via their amino-acid translations with the remaining DNA sequences subsequently profile-aligned to them. The curve as shown is based on the assumption that the translated alignment is 9x faster, on average, than the respective DNA alignment; other values produce nearly identical curves of different scales.

Bininda-Emonds BMC Bioinformatics 2005 6:156   doi:10.1186/1471-2105-6-156
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