Additional file 1.

Qualitative cluster measures. In this document, we elaborate on aspects of the qualitative cluster measures that are not discussed in this paper, such as the demand for specific metrics for clusters based on Linnaean taxonomic classification, how sequences size influence kdcSearch, a proof that amino acid trigams do not occur by chance, how to make a graphic cluster approximation by cladograms, how the evaluated algorithms were executed and the kdcSearch algorithm pseudo-code.

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Santos et al. BMC Genomics 2011 12(Suppl 4):S11   doi:10.1186/1471-2164-12-S4-S11