In this paper, a set of SARS-CoV-2 genomes from four countries are selected for visualizations under the C1 modules of the metagenomic analysis system MAS. Based on the variant construction and the theory of information entropy, the module makes statistics on the number of bases in SARS-CoV-2 sequences to calculate the base probability measures in segments to generate the combinatorial entropy index data from the base probability measures. Under visualization technology, the combinatorial entropy index is projected on 2D clustering genomic index maps and 1D histogram maps to provide projection results. The visual results provide intuitive and easy properties to analyze complicated clustering among genomes to support clustering analysis of SARS-CoV-2 genomes in batches, showing the distribution characteristics of SARS-CoV-2 genomes in different countries or regions conveniently.