### Mx1 in bats

#### full alignment

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Switch CodeML results

- CodeML full alignment
- CodeML fragment_2
- CodeML fragment_3

# Results of CodeML analyses for fragment 1

## 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 = -1195.67 lnL_M2a = -1186.04 LRT: χ2 = 19.27 % sites with ω > 1 = 30.62 avg(ω) = 2.34 p < 0.001 | lnL_M7 = -1197.14 lnL_M8 = -1188.64 LRT: χ2 = 17.01 % sites with ω > 1 = 38.07 avg(ω) = 1.92 p < 0.001 | lnL_M8a = -1195.68 lnL_M8 = -1188.64 LRT: χ2 = 14.08 % sites with ω > 1 = 38.07 avg(ω) = 1.92 p < 0.001
F1X4 | lnL_M1a = -1187.64 lnL_M2a = -1179.83 LRT: χ2 = 15.62 % sites with ω > 1 = 28.34 avg(ω) = 2.2 p < 0.001 | lnL_M7 = -1190.02 lnL_M8 = -1179.85 LRT: χ2 = 20.33 % sites with ω > 1 = 31.04 avg(ω) = 2.12 p < 0.001 | lnL_M8a = -1187.65 lnL_M8 = -1179.85 LRT: χ2 = 15.61 % sites with ω > 1 = 31.04 avg(ω) = 2.12 p < 0.001
F3X4 | lnL_M1a = -1181.57 lnL_M2a = -1172.75 LRT: χ2 = 17.64 % sites with ω > 1 = 18.19 avg(ω) = 2.96 p < 0.001 | lnL_M7 = -1184.87 lnL_M8 = -1172.84 LRT: χ2 = 24.05 % sites with ω > 1 = 21.3 avg(ω) = 2.76 p < 0.001 | lnL_M8a = -1182.19 lnL_M8 = -1172.84 LRT: χ2 = 18.7 % sites with ω > 1 = 21.3 avg(ω) = 2.76 p < 0.001