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Table 6 Summary table for CODEML

From: Evolutionary history of black grouse major histocompatibility complex class IIB genes revealed through single locus sequence-based genotyping

Locus

Model (ref)

2(Lb-La)

p

Positively selected codons

9

61

71

74

85

86

BLB1125

M1a - M2a

34.48

<0.001

 

x

x

x

 

x

M7 - M8

35.56

<0.001

 

x

x

x

 

x

BLB2125

M1a - M2a

22.90

<0.001

 

x

x

x

 

x

M7 - M8

23.02

<0.001

 

x

x

x

x

x

BLB2251

M1a - M2a

27.08

<0.001

 

x

x

x

 

x

M7 - M8

27.12

<0.001

x

x

x

x

x

x

BLB1&2125

M1a - M2a

45.40

<0.001

 

x

x

x

x

x

M7 - M8

48.38

<0.001

 

x

x

x

x

x

Dist. to Tong PBR

  

0

1

0

0

1

0

  1. Two model comparisons were conducted; each comparison includes a neutral model (M1a, M7) and a model allowing for positive selection (M2a, M8). Significance was assessed by comparing twice the difference in likelihood 2(Lb-La) between the models to a χ2-distribution (df = 2). The models fitting our data best are marked in bold. x marks positively selected codons calculated by Bayes Empirical Bayes (BEB) at the >95% confidence level. Distance (Dist.) to Tong PBR corresponds to the amino acid distance between identified site and the nearest peptide binding position identified by Tong et al. [73]. For parameter estimates see Additional file 4.