Table 2

Maximum likelihood bootstrap support of main rodent relationships under different coding models

Unpartitioned models

Partitioned DNA models


Coding

model

/Node

All three

codon

positions

First two

codon positions

and third codon

with RY coding

First two

codon positions

only

Protein

sequences

A partition

per gene

(6 partitions)

A partition per

codon position

(3 partitions)

A partition per

codon position

per gene

(18 partitions)


Squirrel-related clade at the base of the rodent tree

51

35

40

41

46

63

75

Mouse-related clade at the base of the rodent tree

15

28

less than 1

less than 1

17

9

15

Ctenohystrica at the base of the rodent tree

25

30

48

47

31

22

8

Monophyly of squirrel-related clade

86

90

89

98

92

92

95

Monophyly of mouse related clade

96

99

94

77

100

97

99

Monophyly of Ctenohystrica

100

100

99

100

100

100

100

[Anomaluromorpha + Myodonta] monophyly

55

54

65

37

50

72

48

Hystricidae at the base of the Hystricognathi

92

91

89

89

95

91

91


Blanga-Kanfi et al. BMC Evolutionary Biology 2009 9:71   doi:10.1186/1471-2148-9-71

Open Data