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Table 1 Likelihood paramater estimates under the lineage-specific models.

From: Adaptive evolution of Hox-gene homeodomains after cluster duplications

Model

PS-d N

PS-d S

PD-d N

PD-d S

ω0

ωPCD

Sig.

Hox1

        

   One ratio

-707.88

    

0.0096

  

   Two ratio

-705.14

    

0.0046

0.1250

P < 0.05

Hox2

        

   One ratio

-800.02

0.0048

0.5967

0.0025

0.3130

0.0080

  

   Two ratio

-798.08

0.0037

0.6313

0.0090

0.6700

0.0058

0.1334

0.05

Hox3

        

   One ratio

-989.99

0.0042

1.1187

0.0003

0.0718

0.0037

  

   Two ratio

-984.72

0.0034

1.3424

0.0050

0

0.0025

A: (0/0)

B: (1.2/0)

D: (1/0)

P << 0.01

Hox4

        

   One ratio

-1573.85

0.0046

0.4348

0.0081

0.7736

0.0105

  

   Two ratio

-1570.91

0.0034

0.4518

0.0151

0.5811

0.0076

0.0259

P < 0.05

Hox5

        

   One ratio

-1015.97

0.0028

0.8522

0.0266

8.1561

0.0033

  

   Two ratio

-1014.86

0.0025

0.9172

0.0279

1.4231

0.0027

0.0196

n.s.

Hox6

        

   One ratio

-1309.19

0.0110

0.7089

0.0242

1.5604

0.0155

  

   Two ratio

-1297.90

0.0096

0.7323

0.0337

0.5095

0.0131

A: (0/0)

B: (3.5/0)

C: (10/0)

P << 0.01

Hox7

        

   One ratio

-701.50

0.0032

0.8238

0

0

0.0039

  

   Two ratio

-696.90

0.0025

1.0950

0.0037

0

0.0023

(0.5/0)

P << 0.01

Hox8

        

   One ratio

-1092.36

0.0055

0.3889

0.0129

0.9167

0.0141

  

   Two ratio

-1089.88

0.0041

0.4206

0.0204

0.4981

0.0098

0.0409

P < 0.05

Hox9

        

   One ratio

-1389.70

0.0042

0.8239

0.0112

2.1879

0.0101

  

   Two ratio

-1377.10

0.0004

0.6179

0.0110

0.0950

0.0054

0.1156

P << 0.01

Hox10

        

   One ratio

-1790.54

0.0118

0.3296

0.0204

0.5690

0.0359

  

   Two ratio

-1783.60

0.0124

0.5521

0.0225

0

0.0224

(4.5/0)

P << 0.01

Hox11

        

   One ratio

-1210.27

0.0054

0.5091

0.0132

1.2578

0.0105

  

   Two ratio

-1206.53

0.0037

0.5339

0.0244

0.8452

0.0070

0.0288

P << 0.01

Hox12

        

   One ratio

-1092.80

0.0144

0.6274

0.0545

2.3793

0.0229

  

   Two ratio

-1092.72

0.0141

0.6378

0.0563

1.8156

0.0222

0.031

n.s.

Hox13

        

   One ratio

-1745.34

0.0171

0.7425

0.0419

1.8193

0.0230

  

   Two ratio

-1745.61

0.0160

0.7516

0.0496

0.9426

0.0212

0.0526

0.063

  1. Parameters that indicate rate accelerations are in bold. ℓ, likelihood of the model. Sig., significance of the model.