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Table 2 Putative codons in the coding sequence of the TelMV CP gene identified under positive selection within Clade 1

From: A clade of telosma mosaic virus from Thailand is undergoing geographical expansion and genetic differentiation in passionfruit of Vietnam and China

Model

np

Ln L

Estimates of parameters

Model compared

LRT

Positive sites

M0

256

− 4380.480

ω0 = 0.187

M0 vs. M3

< 0.001

Not allowed

M3

260

− 4212.443

p0 = 0.871, p1 = 0.106, p2 = 0.022

  

n/a

   

ω0 = 0.040, ω1 = 0.930, ω2 = 4.067

   

M1a

257

− 4234.674

p0 = 0.877, p1 = 0.123

ω0 = 0.038, ω1 = 1.000

M1a vs. M2a

< 0.001

n/a

M2a

259

− 4211.067

p0 = 0.875, p1 = 0.104, p2 = 0.021

ω0 = 0.041, ω1 = 1.000, ω2 = 4.328

  

Not allowed

M7

257

− 4258.473

p = 0.054, q = 0.074

M7 vs. M8

< 0.001

Not allowed

M8

259

− 4214.917

p0 = 0.954, p = 0.088, q = 0.565

  

20**,23**,28**,34*,46**

   

p1 = 0.046, ω = 2.842

   

M8a

258

− 4233.006

p0 = 0.887, p = 0.609, q = 12.944

p1 = 0.113, ω = 1.000

M8a vs. M8

< 0.001

Not allowed

  1. *Posterior probability > 0.95; **Posterior probability > 0.99%; ns, not significant; np, the numbers of parameters; Ln L, log-likelihood value; LRT: likelihood-ratio test; n/a, no data available