Table 1

Likelihood paramater estimates under the lineage-specific models.
Model
 ℓ
 PS-dN
 PS-dS
 PD-dN
 PD-dS
 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

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

Lynch et al. BMC Evolutionary Biology 2006 6:86   doi:10.1186/1471-2148-6-86