refspecies dm3
TREE ((((((dm3:0.059,droSim1:0.075):0.041,(droYak2:0.104,droEre2:0.107):0.054):0.120,droAna3:0.377):0.072,dp4:0.397):0.061,droWil1:0.536):0.020,((droVir3:0.196,droMoj3:0.255):0.073,droGri2:0.291):0.337)

Mode ENH

EMprior 1
priordiff 0.1

winlen 450
steplen 150
CRMfile crmfile_ma

UFEwmprior 20.0
UFEwmfile ../../UFEmodels/UFE_drosophila
UFEwmlen 10
UFEprint 1

markovorderBG 2
bgprior 0.90
bg A 0.29
bg T 0.29
bg G 0.21
bg C 0.21




