Table 1 

Evolutionary rate analysis of 11S globulin family using branchspecific model of PAML 

Model 
ω setting 
ln L 
Estimated parameters 
Likelihood ratio test 


Oneratio 
entire tree: ω_{0} 
38214.64 
ω_{0 }= 0.234 

Tworatio 
monocot subfamily: ω_{0} 
38210.14 
ω_{0 }= 0.212 
two ratio vs. one ratio: P < 0.01 
dicot subfamily 1& 2: ω_{1} 
ω_{1 }= 0.249 

Threeratio 
monocot subfamily: ω_{0} 
38209.98 
ω_{0 }= 0.212 
three ratio vs. one ratio: P < 0.01 
dicot subfamily 1: ω_{1} 
ω_{1 }= 0.252 
three ratio vs. two ratio: P > 0.05 

dicot subfamily 2: ω_{2} 
ω_{2 }= 0.243 

Sixratio 
branch A: ω_{1} 
38182.58 
ω_{1 }= 0.225 
six ratio vs. one ratio: P < 0.01 
branch B: ω_{2} 
ω_{2 }= 0.373 
six ratio vs. two ratio: P < 0.01 

branch C: ω_{3} 
ω_{3 }= 0.198 
six ratio vs. three ratio: P < 0.01 

branch D: ω_{4} 
ω_{4 }= 0.242 

branch E: ω_{5} 
ω_{5 }= 0.187 

other branches: ω_{0} 
ω_{0 }= 0.283 



Li et al. BMC Evolutionary Biology 2012 12:15 doi:10.1186/147121481215 