Full information on isolate H142940463 (id:2604)
Provenance/primary metadata
- id
- 2604
- isolate
- H142940463
- country
- UK [England]
- continent
- Europe
- town or city
- London
- year
- 2014
- month
- 7
- isolation date
- 2014-07-16
- disease
- gastroenteritis
- source
- other animal
- epidemiology
- environmental isolate
- species
- Campylobacter coli
- sender
- Claire Jenkins, PHE, UK
- curator
- Auto Tagger
- update history
- 72 updates show details
- date entered
- 2014-10-05
- datestamp
- 2022-11-15
Publications (2)
- Cody AJ, Bray JE, Jolley KA, McCarthy ND, Maiden MCJ (2017). Core Genome Multilocus Sequence Typing Scheme for Stable, Comparative Analyses of Campylobacter jejuni and C. coli Human Disease Isolates. J Clin Microbiol 55:2086-2097
- Pearson BM, Louwen R, van Baarlen P, van Vliet AH (2015). Differential Distribution of Type II CRISPR-Cas Systems in Agricultural and Nonagricultural Campylobacter coli and Campylobacter jejuni Isolates Correlates with Lack of Shared Environments. Genome Biol Evol 7:2663-79
Sequence bin
- contigs
- 266
- total length
- 1,734,596 bp
- max length
- 61,964 bp
- mean length
- 6,522 bp
- N50
- 11,246
- L50
- 45
- N90
- 3,557
- L90
- 151
- N95
- 2,202
- L95
- 181
- %GC
- 31.56
- Ns
- 47689
- gaps
- 381
- loci tagged
- 1,137
Annotation quality metrics
| Scheme | Scheme loci | Designated loci | Annotation | |
|---|---|---|---|---|
| Score | Status | |||
| MLST | 7 | 7 | 100 | |
| Ribosomal MLST | 53 | 49 | 92 | |
| C. jejuni / C. coli cgMLST v1.0 | 1343 | 952 | 70 | |
Analysis
rMLST species identification
| Rank | Taxon | Taxonomy | Support | Matches |
|---|---|---|---|---|
| SPECIES | Campylobacter coli | Proteobacteria > Epsilonproteobacteria > Campylobacterales > Campylobacteraceae > Campylobacter > Campylobacter coli | 100% |
Analysis performed: 2023-01-11
Schemes and loci
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