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Alpha diversity indices of Illumina MiSeq metagenomic assemblies (contigs) as calculated by MerCat on k-mers of 21 bp, with a minimum count of 5 for each “k-mer species”. Indices include (A) Shannon’s diversity index, (B) Simpson’s diversity index, and finally (C) the Chao1 k-mer measures the number of k-mer species qualifying based on minimum count parameter. Sample months are indicated. The sample denoted “All” is an assembly of all reads from each Illumina MiSeq dataset combined.
