### Mx1 in bats

#### full alignment

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Switch CodeML results

- CodeML full alignment
- CodeML fragment_1
- CodeML fragment_3

# Results of CodeML analyses for fragment 2

## CodeML parameter and result files

| M0 | M1a | M2a | M7 | M8 | M8a
--- | --- | --- | --- | --- | --- | ---
F3X4 | results | params | results | params | results | params | results | params | results | params | results | params
F1X4 | results | params | results | params | results | params | results | params | results | params | results | params
F61 | results | params | results | params | results | params | results | params | results | params | results | params

## Likelihood ratio tests between nested models

Green = LRT was significant at significance level 0.1

Red = LRT was not significant.

| M1a-M2a | M7-M8 | M8a-M8
--- | --- | --- | ---
F61 | lnL_M1a = -1327.27 lnL_M2a = -1327.27 LRT: χ2 = 0.0 % sites with ω > 1 = NA avg(ω) = NA p = 1.0 | lnL_M7 = -1326.73 lnL_M8 = -1326.53 LRT: χ2 = 0.39 % sites with ω > 1 = NA avg(ω) = NA p = 0.821 | lnL_M8a = -1326.56 lnL_M8 = -1326.53 LRT: χ2 = 0.06 % sites with ω > 1 = NA avg(ω) = NA p = 0.803
F1X4 | lnL_M1a = -1321.27 lnL_M2a = -1321.27 LRT: χ2 = 0.0 % sites with ω > 1 = NA avg(ω) = NA p = 1.0 | lnL_M7 = -1320.34 lnL_M8 = -1320.29 LRT: χ2 = 0.09 % sites with ω > 1 = NA avg(ω) = NA p = 0.956 | lnL_M8a = -1320.29 lnL_M8 = -1320.29 LRT: χ2 = 0.0 % sites with ω > 1 = NA avg(ω) = NA p = 0.999
F3X4 | lnL_M1a = -1306.83 lnL_M2a = -1306.83 LRT: χ2 = 0.0 % sites with ω > 1 = NA avg(ω) = NA p = 1.0 | lnL_M7 = -1305.99 lnL_M8 = -1305.9 LRT: χ2 = 0.19 % sites with ω > 1 = NA avg(ω) = NA p = 0.908 | lnL_M8a = -1305.9 lnL_M8 = -1305.9 LRT: χ2 = 0.0 % sites with ω > 1 = NA avg(ω) = NA p = 1.0