Table 4 Transition probability matrix Embedded Image that maximizes the effect of selection on the relative usage of 4FD codons
ATGC
A0.88820.00130.00000.1104
T0.00080.98820.00070.0103
G0.17290.15490.58640.0858
C0.17190.00250.28840.5372
  • This generates, together with the selection, the largest value of Embedded Image under SM variant. The stationary distribution of the matrix is: Embedded Image A nucleotide in the column is substituted by a nucleotide in the row.