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Table 1 Parameter estimates, log-likelihood scores, and likelihood ratio test (LRT) P values obtained from Branch-site analyses of the RH2a data set

From: Complex patterns of divergence among green-sensitive (RH2a) African cichlid opsins revealed by Clade model analyses

Model (n.p.)

Site class 0

Site class 1

Site class 2

κ

lnL

LRT Pvalue

 

ω0

p 0

ω1

p 1

ω2

p 2

   

BrS-A α (37)

0.0235

0.8241

1

0.1759

1.0000

0.0000

1.7670

−3789.9781

1.0000

BrS-N α (36)

0.0235

0.8241

1

0.1759

1

0.0000

1.7670

−3789.9781

 

BrS-A β (37)

0.0230

0.6151

1

0.1296

1.0000

0.2553

1.7652

−3789.1087

1.0000

BrS-N β (36)

0.0230

0.6151

1

0.1296

1

0.2553

1.7652

−3789.1087

 

BrS-A αβ (37)

0.0234

0.8205

1

0.1746

2.8146

0.0049

1.7670

−3789.9535

0.8643

BrS-N αβ (36)

0.0235

0.8182

1

0.1743

1

0.0076

1.7669

−3789.9681

 

BrS-A αβ reduced (27)

0.0000

0.7487

1

0.2514

1.0000

0.0000

2.2643

−2200.6106

1.0000

BrS-N αβ reduced (26)

0.0000

0.7487

1

0.2514

1

0.0000

2.2643

−2200.6106

 
  1. NOTE—n.p number of parameters.