Table 1  Bias in codon usage between Pγ and Pε subgenomes
Amino AcidCodonNo. CodonsUsage, %Pγ-Pε
PheTTT35,13437,41150.5653.552.99
TTC34,35432,44849.4446.45
ValGTT29,94130,32559.9861.561.58
GTC19,97718,93740.0238.44
SerTCT34,49836,15364.4566.261.80
TCC19,03018,41235.5533.74
ProCCT24,50125,36066.3767.881.51
CCC12,41411,99933.6332.12
ThrACT25,04426,24558.2460.782.55
ACC17,96116,93241.7639.22
AlaGCT30,76831,47961.1463.542.4
GCC19,55718,06038.8636.46
HisCAT20,34320,78758.5160.071.56
CAC14,42613,81841.4939.93
AsnAAT48,99551,06353.5755.281.71
AAC42,46741,31646.4344.72
AspGAT55,55656,47657.3658.561.21
GAC41,30739,95942.6441.44
CysTGT10,19610,16155.7155.190.52
TGC8105825044.2944.81
SerAGT21,21921,36550.4850.810.33
AGC20,81720,68249.5249.19
GlyGGT30,80129,86964.5263.820.70
GGC16,93716,93135.4836.18
Avg.1.57
Mean1.56
Q1-Q3[1.08-1.95]
  • For tRNA species that pair with two codons, the usage % of each codon was determined as follows: (number of one codon/number of both codon ×100). The values were calculated for all chromosomal regions defined as belonging to Pγ or Pε.