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Table 5 Substitution models

From: Amblyomma cajennense (Fabricius, 1787) (Acari: Ixodidae), the Cayenne tick: phylogeography and evidence for allopatric speciation

Gene

Model

Ti/Tv

A > C

A > G

A > T

C > G

C > T

G > T

α

I

% A

% C

% G

% T

12SrDNA

GTR+I

 

0.33

7.03

3.01

0

11.93

1

Equal

0.62

41.7

8.7

14.5

35.1

COII

TRN+G

 

1

5.75

1

1

8.95

1

0.26

0

37.8

17.9

7.9

36.4

D-loop

HKY+I+G

1.04

      

1.07

0.57

30.9

13.9

13.0

42.2

ITS2

GTR+I

 

1.3

5.05

1.32

0.22

0.88

1

Equal

0.56

14.7

37.9

28.9

18.5

mtDNA

GTR+G

 

0.76

4.29

1.53

0.57

7.58

1

0.21

0

37.0

13.8

11.4

37.8

n+mtDNA

TVM+I+G

 

1

4.76

2.88

0.43

4.76

1

1.03

0.49

27.6

24.0

18.2

30.2

  1. Substitution models selected by the Akaike Information Criterion in Modeltest for each dataset, with substitution matrices (x >y indicating mutation from nucleotide x to nucleotide y), Ti/Tv = transition/transversion rates, α = shape of gamma distribution, I = proportion of invariable sites, and base frequencies (A, C, G, T) in percentage. GTR + I = General Time Reversible + Invariable model; GTR + Gamma = General Time Reversible + Gamma model; TRN + G = Tamura Nei + Gamma model; HKY + I + G = Hasegawa-Kishino-Yano + Invariable + Gamma model; TVM + I + G = Transition Model + Invariable + Gamma model.
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BMC Ecology and Evolution

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