Table 3.

Ranking of the codon pairs that display the highest residual difference between S. cerevisiae, S. pombe and C. albicans

S. pombe-S. cerevisiae		S. pombe-C. albicans		C. albicans-S. cerevisiae
Context	Difference	Context	Difference	Context	Difference
CAG → CAG	27,798	CAA → CAA	100,639	CAA → CAA	79,38
UUG → AAA	25,266	AAC → AAC	76,716	AAC → AAC	62,939
CUU → CGU	25,168	ACC → ACC	60,208	ACC → ACC	50,735
CAA → CAG	24,507	CCA → CCA	47,603	CCA → CCA	39,196
AAA → AAG	23,593	ACA → ACA	47,359	CAC → CAC	39,032
UUC → AAA	22,86	CAC → CAC	47,175	ACA → ACA	39,029
AAU → AAU	22,021	GGA → AAA	45,043	GGU → GGU	36,501
CAA → CAA	21,259	AAG → AAA	43,994	GGA → UUA	35,81
GUU → CUU	21,194	CAA → CAG	43,927	GGA → AAA	29,786
GAU → GAC	19,483	UCA → UCA	41,533	GUU → GAU	29,753

Anaconda was used to analyze the codon context of the complete genomes of S. cerevisiae, S. pombe and C. albicans. The adjusted residuals of each codon context calculated for each pair of genomes - that is, S. pombe-S. cerevisiae; S. pombe-C. albicans; and C. albicans-S. cerevisiae - were subtracted and the result converted into a positive number by a module calculation. These values were used to rank the respective codon contexts and the 10 highest cases obtained were selected. Among these three yeast species, S. pombe and S. cerevisiae display the lowest differences, with the maximum value of the difference being found for the CAG-CAG pair (27.798). For S. pombe and C. albicans that value reaches 100.639 for the CAA-CAA codon pair. It is noteworthy that the highest difference value for the former pair is lower than the lowest value for the latter in this ranking of context differences. The only codon pair shared between all three yeast pairs is shown in bold.