The GoSeqIt Tools web-platform offers fast, reliable, confidential, and user-friendly characterisation of bacteria based on DNA sequences.

Go to GoSeqIt Tools

When uploading bacterial draft genomes to GoSeqIt Tools, you will be able to get information on:

  • The quality of the bacterial draft genome
  • The bacterial species (1)
  • The Multilocus Sequence Type (MLST) of the bacteria (2)
  • Presence of acquired antibiotic resistance genes (3) and point mutations in chromosomal genes causing antimicrobial resistance (4)
  • Presence of virulence factors (for Escherichia coliStaphylococcus aureus, Enterococcus, and Listeria) (5)
  • Presence of plasmids (for Enterobacteriaceae and gram-positive bacteria)  (6)
  • Plasmid Multilocus Sequence Typing (pMLST) for plasmids of the type IncN, IncHI1, IncHI2, IncI1, IncF, and IncA/C (6)
  • The serotype of E. coli isolates (7)
  • The FimH type of E. coli isolates (8)
  • The E. coli phylotype.

The Bacterial Analysis Pipeline (9) and the E. coli serotyping (7) methods are also available via Illumina BaseSpace Sequence Hub.



Larsen MV, Cosentino S, Lukjancenko O, Saputra D, Rasmussen S, Hasman H, Sicheritz-Pontén T, Aarestrup FM, Ussery DW, Lund O. Benchmarking of methods for genomic taxonomy. J Clin Microbiol. 2014 May;52(5):1529-39. PMID: 24574292. [PubMed] [Read by QxMD]


Larsen MV, Cosentino S, Rasmussen S, Friis C, Hasman H, Marvig RL, Jelsbak L, Sicheritz-Pontén T, Ussery DW, Aarestrup FM, Lund O. Multilocus sequence typing of total-genome-sequenced bacteria. J Clin Microbiol. 2012 Apr;50(4):1355-61. PMID: 22238442. [PubMed] [Read by QxMD]


Zankari E, Hasman H, Cosentino S, Vestergaard M, Rasmussen S, Lund O, Aarestrup FM, Larsen MV. Identification of acquired antimicrobial resistance genes. J Antimicrob Chemother. 2012 Nov;67(11):2640-4. PMID: 22782487. [PubMed] [Read by QxMD]


Zankari E,, Allesøe R, Joensen KG, Cavaco LM, Lund O, Aarestrup FM. PointFinder: a novel web tool for WGS-based detection of antimicrobial resistance associated with chromosomal point mutations in bacterial pathogens. J Antimicrob Chemother. 2017 Oct 1;72(10):2764-2768. PMID: 29091202. [PubMed] [Read by QxMD]


Joensen KG, Scheutz F, Lund O, Hasman H, Kaas RS, Nielsen EM, Aarestrup FM. Real-time whole-genome sequencing for routine typing, surveillance, and outbreak detection of verotoxigenic Escherichia coli. J Clin Microbiol. 2014 May;52(5):1501-10. PMID: 24574290. [PubMed] [Read by QxMD]


Carattoli A, Zankari E, García-Fernández A, Voldby Larsen M, Lund O, Villa L, Møller Aarestrup F, Hasman H. In silico detection and typing of plasmids using PlasmidFinder and plasmid multilocus sequence typing. Antimicrob Agents Chemother. 2014 Jul;58(7):3895-903. PMID: 24777092. [PubMed] [Read by QxMD]


Joensen KG, Tetzschner AM, Iguchi A, Aarestrup FM, Scheutz F. Rapid and Easy In Silico Serotyping of Escherichia coli Isolates by Use of Whole-Genome Sequencing Data. J Clin Microbiol. 2015 Aug;53(8):2410-26. PMID: 25972421. [PubMed] [Read by QxMD]


Roer L, Tchesnokova V, Allesøe R, Muradova M, Chattopadhyay S, Ahrenfeldt J, Thomsen MCF, Lund O, Hansen F, Hammerum AM, Sokurenko E, Hasman H. Development of a Web Tool for Escherichia coli Subtyping Based on fimH Alleles. J Clin Microbiol. 2017 Aug;55(8):2538-2543. PMID: 28592545. [PubMed] [Read by QxMD]


Thomsen MC, Ahrenfeldt J, Cisneros JL, Jurtz V, Larsen MV, Hasman H, Aarestrup FM, Lund O. A Bacterial Analysis Platform: An Integrated System for Analysing Bacterial Whole Genome Sequencing Data for Clinical Diagnostics and Surveillance. PLoS One. 2016 Jun 21;11(6):e0157718. PMID: 27327771. [PubMed] [Read by QxMD]