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Table 1 Increasing k-mer length decreases the ability of polyCRACKER to assign N. tabacum genome sequences to a subgenome. The threshold for minimum counts for k-mers scales inversely to the k-mer length

From: PolyCRACKER, a robust method for the unsupervised partitioning of polyploid subgenomes by signatures of repetitive DNA evolution

Kmer length Minimum k-mer count threshold Cohen’s Kappa: unambiguous; all sequences Amount Sequence Agreement / Total Genome Number of k-mers used
15 150 0.998, 0.991 0.868 929,119
23 150 0.998, 0.989 0.867 296,059
26 150 0.998, 0.985 0.865 195,362
33 120 0.998, 0.986 0.866 108,370
43 100 0.997, 0.975 0.859 35,058
53 80 0.993, 0.996 0.826 13,061