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Table 3 Likelihood values and parameter estimates for the FGF5 gene

From: Characterization of hairless (Hr) and FGF5genes provides insights into the molecular basis of hair loss in cetaceans

Models

ln La

Estimate of parameters

2ΔLb(P-value)

Positively selected sites

M0:one-ratio

−4450.77242

ω = 0.16615

  

Branch-specific models

    

Branch a (ancestral Cetacea)

    

Two-ratio

−4450.74677

ω0 = 0.16656, ω1 = 0.14336

0.0513

 

(P = 0.8208)

Branch b (ancestral Odontoceti)

    

Two-ratio

−4447.80276

ω0 = 0.16253, ω1 = 1.04812

5.93932

 

( P = 0.0148)

Branch c (ancestral Mysticeti)

    

Two-ratio

−4449.912614

ω0 = 0.16491, ω1= 0.93251

1.719612

 

(P = 0.189743)

Branch d (ancestral Cetartiodactyla)

    

Two-ratio

−4449.692636

ω0 = 0.16802, ω1 = 0.0001

2.159568

 

(P = 0.1416845)

Branch e (ancestral Carnivora)

    

Two-ratio

−4450.028289

ω0 = 0.16284, ω1 = 0.28977

1.488262

 

(P = 0.2224863)

Branch f (ancestral Chiroptera)

    

Two-ratio

−4450.762558

ω0 = 0.16637, ω1 = 0.14605

0.019724

 

(P = 0.8883106)

Branch g (ancestral Rodentia)

    

Two-ratio

−4450.367662

ω0 = 0.16377, ω1 = 0.33139

0.809516

 

(P = 0.3682634)

Branch h (ancestral Primates)

    

Two-ratio

−4450.765224

ω0 = 0.16585, ω1 = 0.17607

0.014396

 

(P = 0.9044964)

Branch-site models

    

Null

−4370.04122

p0 = 0.80258, p1 = 0.19742, ω0 = 0.05816, ω1 = 1

  

Branch a (ancestral Cetacea)

    

Alternative

−4370.04122

p0 = 0.80258, p1 = 0.19742, p2a = 0, p2b = 0, ω0 = 0.05816, ω1 = 1, ω2 = 1

0 (P = 1)

None

Branch b (ancestral Odontoceti)

    

Alternative

−4365.28771

p0 = 0.46391, p1 = 0.12028, p2a = 0.33019, p2b = 0.08561, ω0 = 0.05123, ω1 = 1, ω2 = 2.03039

9.50702

K24E(0.945);P34Q(0.914);S68P(0.535);S74N(0.947);S84T(0.94)

( P = 0.0086)

Branch c (ancestral Mysticeti)

    

Alternative

−4368.231030

p0 = 0, p1 = 0, p2a = 0.80784, p2b = 0.19216, ω0 = 0.05877, ω1 = 1, ω2 = 1

3.62038

M119T(0.777);V235A(0.937)

(P = 0.163623)

Branch d (ancestral Cetartiodactyla)

    

Alternative

−4370.041222

p0 = 0.80258, p1 = 0.19742, p2a = 0, p2b = 0,

0 (P = 1)

None

ω0 = 0.05816, ω1 = 1, ω2 = 1

Branch e (ancestral Carnivora)

    

Alternative

−4370.041222

p0 = 0.80258, p1 = 0.19742, p2a = 0, p2b = 0,

0 (P = 1)

186T(0.571)

ω0 = 0.05816, ω1 = 1, ω2 = 1

Branch f (ancestral Chiroptera)

    

Alternative

−4369.925398

p0 = 0.75669, p1 = 0.18750, p2a = 0.04473, p2b = 0.01108, ω0 = 0.05728, ω1 =1, ω2 =1

0.231644

84T(0.736)

(P = 0.8906337)

Branch g (ancestral Rodentia)

    

Alternative

−4370.041222

p0 = 0.80258, p1 = 0.19742, p2a =0, p2b =0,

0 (P = 1)

43G(0.621)

ω0 = 0.05816, ω1 = 1, ω2 = 1

Branch h (ancestral Primates)

    

Alternative

−4370.041222

p0 = 0.80258, p1 = 0.19742, p2a = 0, p2b = 0,

0 (P = 1)

None

  

ω0 = 0.05817, ω1 = 1, ω2 = 1

  
  1. Note: a, ln L is the log-likelihood score; b, likelihood ratio test (LRT) to detect positive selection.