Quantification of codon selection for comparative bacterial genomics

BMC Genomics

Table 1 Normalized Synonymous Codon Usage as a function of alternative codon scoring tables.

1. The f_n table was constructed using all of the genes in the specified genome; NSCU values are the frequency of each codon normalized to the largest value within each synonymous codon group
2. The f_o table was constructed using the Translation40 genes [8].
3. The normalized δ values were calculated as the f_o/f_n ratio, thus correcting f_o values to the codon composition of the genome as a whole.
4. Bolded underlines indicate that the uncorrected table significantly underestimates selection against this codon and incorrectly denotes it as the preferred codon.
5. Single underlines indicate that the uncorrected table significantly overestimates selection against this codon.
6. Asterisks indicate that the uncorrected table significantly underestimates selection against this codon.

ISSN: 1471-2164