Dinucleotide bias at codon–codon junctions is not a dominant force shaping codon pair bias

Abstract

<p><b>Copyright information:</b></p><p>Taken from "tRNA properties help shape codon pair preferences in open reading frames"</p><p>Nucleic Acids Research 2006;34(3):1015-1027.</p><p>Published online 9 Feb 2006</p><p>PMCID:PMC1363775.</p><p>© The Author 2006. Published by Oxford University Press. All rights reserved</p> Codon pair residuals in a range of genomes were grouped into 16 sets defined by the identity of the cP3-cA1 dinucleotide at the codon–codon junction. For each set, the ratio of under-represented: over-represented codon pairs was assessed and converted to an index representing the uniformity of residual value polarities for codon pairs sharing cP3-cA1 identity. The bar chart shows the average cP3-cA1 dinucleotide bias index for each genome. Error bars represent +/− 1 standard deviation ( = 16). Standard species designations were used (see )