Figure 2

Three methods of identifying preferred codons. In the second column are the 59 codons belonging to the 18 amino acid with more than one codon. The first row indicates the species. The colored shading indicates the values of the relative strength of CUB for the three different statistics used, correlation coefficients for A and B, and RSCU for C. (A) is the correlation between codon usage and overall gene CUB (negative ENC). (B) is the correlation between codon usage and individual amino acid codon usage bias, sENC-X. (C) is the relative synonymous codon usage (RSCU) for the 10% highest biased genes based on ENC. A figure showing RSCU for all CDSs as well as tables with actual values of correlation coefficients and RSCU are included in Additional Files.