 A p value of 0.01 is obtained for 100 replicates if 99 replicates have longer combined tree lengths.Some measures attempt to measure the amount of homoplasy in a dataset with reference to a tree, though it is not necessarily clear precisely what property these measures aim to quantify

The consistency index (CI) measures the consistency of a tree to a set of data – a measure of the minimum amount of homoplasy implied by the tree.It is calculated by counting the minimum number of changes in a dataset and dividing it by the actual number of changes needed for the cladogram.