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Table 4 Substitution rate comparisons of the phylogenetic tree of the 13 protein-coding genes of mitochondrial genomes of Branchiopoda

From: Complete mitochondrial genomes of three fairy shrimps from snowmelt pools in Japan

Models

LR

d.f.

p

No clock vs. Global clock

336.07

25

3.24 × 10−56

Global clock vs. Local clock1

129.64

1

4.97 × 10−30

Global clock vs. Local clock2

154.46

3

2.87 × 10−33

  1. No clock: substitution rates are entirely free to vary from branch to branch (lnL: − 180,112.2984, 51 parameters)
  2. Global clock: all branches have the same substitution rate (lnL: − 180,280.3318, 26 parameters)
  3. Local clock1: Artemiidae (#1), Chirocephalidae (#2), and Diplostraca (#3) have higher substitution rates than Notostraca, Thamnocephalidae, and Streptocephalidae, and the three ratios (#1 = #2 = #3) are equal (lnL: − 180,215.5223, 27 parameters)
  4. Local clock2: Artemiidae (#1), Chirocephalidae (#2), and Diplostraca (#3) have higher substitution rates than Notostraca, Thamnocephalidae, and Streptocephalidae, and the three ratios (#1, #2, and #3) are independent (lnL: − 180,203.1015, 29 parameters)
  5. LR the likelihood scores of the two models
  6. d.f. degrees of freedom
  7. p: p-value from the χ2 test