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Table 3 Summary of the Genus-level classification for three Human Microbiome Project datasets ( k =20)

From: CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers

SRS ID High confidence Low confidence No assignment Average Most frequent genera (high
  assignments (%) assignments (%) (%) confidence score confidence assignments)
015072 62.3% 25.9% 11.8% 0.868 Lactobacillus (64.7%)
(vagina)      Pseudomonas (7.3%)
      Desulfosporosinus (4.4%)
      Clostridium (1.7%)
      Gardnerella (1.2%)
019120 55.1% 28.2% 16.7% 0.842 Streptococcus (27.2%)
(mouth)      Haemophilus (15.0%)
      Prevotella (11.4%)
      Neisseria (5.0%)
      Veillonella (2.9%)
023847 68.3% 23.8% 7.9% 0.954 Propionibacterium (61.5%)
(nose)      Staphylococcus (8.5%)
      Achromobacter (7.5%)
      Alteromonas (6.3%)
      Desulfosporosinus (5.0%)
  1. Columns: (1) short read sample ID; (2) percentage of high confidence assignments; (3) percentage of low confidence assignments; (4) percentage of unassigned reads; (5) average confidence score for all assignments; (6) five most frequent genera in high confidence assignments (listed in decreasing order). An assignment is high confidence if the confidence score is higher than 0.75, low confidence otherwise.