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. 2009 Sep 29;69(4):333–345. doi: 10.1007/s00239-009-9282-x

Table 2.

ML estimates of evolutionary parameters for the HKY85 M2 model

Host Par Value (95% CI)
All Inline graphic 12.5 (11.8, 13.8)
Inline graphic 0.226 (0.216, 0.237)
Avian Inline graphic U 0.235 (0.228, 0.242)
Inline graphic C 0.207 (0.200, 0.213)
Inline graphic A 0.329 (0.322, 0.337)
Inline graphic G 0.229 (0.222, 0.236)
Mammalian Inline graphic U 0.253 (0.239, 0.267)
Inline graphic C 0.178 (0.167, 0.188)
Inline graphic A 0.399 (0.385, 0.415)
Inline graphic G 0.170 (0.159, 0.179)

Note: the substitution rate from nucleotide i to j, q ij, can be calculated from this table as q ij = cκπj for transitions and q ij = cπj for transversions, where c is a proportionality constant (for details see chap 1 in Yang 2006)