Impact of Deep Coalescence on the Reliability of Species Tree Inference from Different Types of DNA Markers in Mammals
θ, present and ancestral population size parameters (here, assumed to be constant). τ, divergence times. x and y, length of internal branches. The MCcoal notation of this species tree corresponds to: “(((sp1_# θ1, sp2_# θ2): τ1 # θ12, sp3): τ2 # θ123, sp4): τ3 # θ1234;”. Both τ and θ are measured in substitutions/site.