Table 8.

Model parameters for the E. coli K12 chromosome when the M_O method is implemented

Site Class1	CA+T2	πAT	σAT	πGC	σGC
IG	0.578 [0.576,0.579]	0.0012 [-0.001,0.003]	- 0.0053 [-0.007,-0.003]	0.0015 [-0.0004,0.003]	0.0180 [0.016,0.020]
C1+	0.411 [0.410,0.413]	0.0944 [0.093,0.096]	- 0.0023 [-0.003,0.0002]	0.104 [0.102,0.106]	0.0072 [0.007,0.010]
C1-	0.409 [0.408,0.410]	- 0.0954 [-0.097,-0.094]	- 0.0010 [-0.003,0.0004]	- 0.107 [-0.108,-0.105]	0.0109 [0.0092,0.013]
C2+	0.593 [0.592,0.594]	- 0.0168 [-0.018,-0.015]	0.0079 [0.0059,0.010]	- 0.0461 [-0.048,-0.045]	0.0045 [0.003,0.006]
C2-	0.594 [0.593,0.595]	0.0133 [0.011,0.015]	- 0.0019 [-0.004,0.001]	0.0449 [0.043,0.046]	0.0038 [0.002,0.005]
C3+	0.442 [0.441,0.444]	- 0.0782 [-0.080,-0.077]	- 0.0056 [-0.008,-0.005]	0.0219 [0.0193,0.0234]	0.0249 [0.022,0.026]
C3-	0.439 [0.438,0.441]	0.0813 [0.080,0.082]	- 0.0064 [-0.008,-0.005]	- 0.0198 [-0.021,-0.018]	0.0241 [0.022,0.026]
D4+	0.381 [0.378,0.383]	-0.0548 [-0.058,-0.052]	-0.0079 [-0.010,-0.005]	0.0228 [0.020,0.026]	0.0464 [0.043,0.049]
D4-	0.380 [0.387,0.382]	0.0619 [0.059,0.064]	-0.0079 [-0.010,-0.005]	-0.0243 [-0.027,-0.021]	0.0421 [0.039,0.046]

¹Sites are classified as intergenic (IG) or coding (C) with the latter further classified by codon position, as indicated by the subscript, and chromosome strand, as indicated by the superscript. D₄ are four fold degenerate C₃ sites.

²The ML value is given with the 95% interval given in brackets.