Hamming Distance Matrix HD

For illustration of construction of the n-dimensional distance matrix, we have selected a pair of nonane isomers 3,4-dimethylheptane and 3-ethyl-2methylhexane 

FIGURE 9.1 The most similar nonane isomers 3,4-dunethylheptane and 3-ethyl-2-methylhexane. To better see their similarity, below the second isomers has been reflected, and the common substructure has been emphasized in hold. 

In the case of the isomer 3,4-dimethylheptane, for the element (1,2), the Hamming distance between columns (or rows) 

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