Figure 3. Incomplete lineage sorting.
As the evolution of three sampled alleles (blue solid circles at the bottom) is traced backward in time, alleles from A and B might fail to coalesce in the ancestral population. This results in all three alleles entering the ancestral population of all three species, and the alleles from B and C coalescing first, by chance, giving rise to a gene tree that is incongruent with the species tree. The probability of this event happening in this scenario is a function of the branch length, t, as measured in coalescent units (one coalescent unit equals 2N generations, where N is the population size).
