Analysis of two Hox gene cluster in terms of shortest Hamiltonian paths w.r.t. genetic distance. Small diagrams indicate the genomic order and reading direction of the genes (black triangles). The small histograms show the probability that a gene is endpoint of a Hamiltonian path, the square panels below display the posterior probabilities of adjacencies of Hox genes along shortest Hamiltonian paths w.r.t. to genetic distance. Top: effect of the temperature parameter T for distances between Latimeria menadoensis homeobox sequences. Below: Comparison of adjacencies for two different metrics (Hamming distance, and BLOSSUM45 derived dissimilarities) in L. menadoensis (left) and S. purpuratus for T = 0.1 to emphasize the structure of the ambiguities. Gene names are abbreviated 1-13 = HoxA1-HoxA13 for L. menadoensis and 1-8 = HoxA1-HoxA8, 9* = HoxA9/10, a-c = HoxA11/13a-HoxA11/13c for S. purpuratus.