Showing up to 2,000 rows. For the complete list including all variant alleles, download vfdb_gene_freq.tsv.gz from the Downloads page.
About this module
This page lets you retrieve E. coli genomes by virulence factors.
Pick up to five genes, choose whether samples must match
any or all of them, and download the
accession list — ready for
datasets download genome accession --inputfile list.txt.
Source
ABRicate against the Virulence Factor Database (VFDB).
How to use it
- Click a quick-pick chip, or use the autocomplete search to find any of the 541 genes
- Add up to 5 genes — the results table updates instantly
- Switch between Match ANY (union) and Match ALL (intersection)
- Click 🧬 Accessions to download the accession list as plain text
- Or use TSV/CSV/JSON for per-gene presence flags plus metadata
Coverage in this build
- 1,812 genomes carry at least one virulence factors determinant
- 541 unique genes
- 141,260 presence records
Full data download
For the complete presence matrix (long format:
accession | gene | num_hits | identities)
and the full frequency table, go to the
Downloads page. All files are gzipped TSVs.
Cite
- EcoliTyper: Beckley B, Amarh V. BMC Bioinformatics 2026. DOI