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It is long known that indices of non-parametric bootstrapping significantly underestimate the probability of existence of a topological element, particularly, in cases when lineages analysed differ in rates of character substitution. Results of conventional bootstrap analysis often indicate low support for deeper nodes of the tree or suggest unresolved phylogenies. True topological elements present in some of equal trees are thus lost upon building a consensus. Here we present an easy method of estimating reliability of individual nodes of the tree and screening the equal tree space for reliable topological elements.