Full information on isolate E_UK583638 (id:4814)
Provenance/primary metadata
- id
- 4814
- isolate
- E_UK583638
- species
- Chlamydia trachomatis
- genovar
- E
- country
- UK
- continent
- Europe
- year
- 2012
- host
- human
- sex
- male
- source
- urethra
- bioproject accession
- PRJEB2949 www.ebi.ac.uk
- biosample accession
- SAMEA2045109 www.ebi.ac.uk
- ENA run accession
- ERR658650 www.ebi.ac.uk
- sender
- Odile Harrison, University of Oxford, UK
- curator
- Auto Tagger
- update history
- 8 updates show details
- date entered
- 2022-06-22
- datestamp
- 2022-12-01
Publication (1)
- Hadfield J, Harris SR, Seth-Smith HMB, Parmar S, Andersson P, Giffard PM, Schachter J, Moncada J, Ellison L, Vaulet MLG, Fermepin MR, Radebe F, Mendoza S, Ouburg S, Morré SA, Sachse K, Puolakkainen M, Korhonen SJ, Sonnex C, Wiggins R, Jalal H, Brunelli T, Casprini P, Pitt R, Ison C, Savicheva A, Shipitsyna E, Hadad R, Kari L, Burton MJ, Mabey D, Solomon AW, Lewis D, Marsh P, Unemo M, Clarke IN, Parkhill J, Thomson NR (2017). Comprehensive global genome dynamics of Chlamydia trachomatis show ancient diversification followed by contemporary mixing and recent lineage expansion. Genome Res 27:1220-1229
Sequence bin
- contigs
- 469
- total length
- 1,019,641 bp
- max length
- 15,045 bp
- mean length
- 2,175 bp
- N50
- 3,462
- L50
- 88
- N90
- 1,086
- L90
- 298
- N95
- 737
- L95
- 354
- %GC
- 41.27
- Ns
- 0
- gaps
- 0
- loci tagged
- 619
Annotation quality metrics
| Scheme | Scheme loci | Designated loci | Annotation | |
|---|---|---|---|---|
| Score | Status | |||
| C. trachomatis cgMLST v1.0 | 817 | 496 | 60 | |
Analysis
rMLST species identification
| Rank | Taxon | Taxonomy | Support | Matches |
|---|---|---|---|---|
| SPECIES | Chlamydia trachomatis | Chlamydiae > Chlamydiia > Chlamydiales > Chlamydiaceae > Chlamydia > Chlamydia trachomatis | 100% |
Analysis performed: 2023-01-25
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
Export:
Analysis: