refspecies hg18
TREE ((((hg18:0.048,rheMac2:0.048):0.143,mm9:0.489):0.030,((canFam2:0.224,equCab1:0.149):0.011,bosTau3:0.246):0.047):0.365,monDom4:0.481);

Mode TFBS
EMprior 0

UFEwmprior 200.0
UFEwmfile ../../UFEmodels/UFE_mammals
UFEwmlen 8
UFEprint 1

markovorderBG 0
bgprior 0.98
bg A 0.25
bg T 0.25
bg G 0.25
bg C 0.25

restrictparses 0
sitefile sites_ma
priorfile priors_ma
loglikfile loglikelihoods_ma
printsiteals 1
minposterior 0.2


