Table 4.
Method | Classification | Best Hits | |
---|---|---|---|
Zymo | V3V4 | Escherichia/Shigella | 994 |
V4V5 | Escherichia/Shigella | 996 | |
FL-Representative | E. coli O157:H7 | 53 | |
FL-Full Complement | E. coli O157:H7 | 14 | |
HMP | V3V4 | Escherichia/Shigella | 994 |
V4V5 | Escherichia/Shigella | 996 | |
FL-Representative | E. coli | 320 | |
FL-Full Complement | E. coli K12 | 32 |
The ASVs identified from the E. coli strains in the Zymo and HMP mock communities were used to classify the strains based on the V3V4 region alone, the V4V5 region alone, the representative (i.e. most abundant) full-length (FL) sequence, and the full complement of full-length sequences (Materials and Methods). Classification was based on a consensus across the best hits identified by exact BLAST hits against the NCBI nucleotide database (nt). The number of equally best hits is recorded.