Amino acid and codon usage biases by CDS region, their relationship to nucleosome positioning attributes, and optimal codon identity.

*codons with significant skews (see Methods) marked ?.**as determined by Kliman et al. (2003) [45]. Xd: optimal codon significantly depleted in linker in the core region.***as determined by Peckham et al. (2007) [44]. Positive score indicates that triplet is predictive of nucleosome binding. See Methods for a brief explanation of the receiver operating characteristic (ROC).****i.e., all synonymous codons show either positive or negative ROC scores.*****see Figure 4 and Table S3.