Full information on isolate B_Aus2 (id:687)
Provenance/primary metadata
- id
- 687
- isolate
- B_Aus2
- species
- Chlamydia trachomatis
- serovar
- B
- genovar
- B
- country
- Australia
- continent
- Oceania
- host
- human
- source
- ocular
- comments
- isolated 1986/1991
- bioproject accession
- PRJEB2035 www.ebi.ac.uk
- biosample accession
- SAMEA1559248 www.ebi.ac.uk
- ENA run accession
- ERR189742 www.ebi.ac.uk
- rMLST database accession
- 10543
- sender
- Keith Jolley, University of Oxford, UK
- curator
- Auto Tagger
- update history
- 15 updates show details
- date entered
- 2014-12-15
- datestamp
- 2022-12-01
Publication (1)
- Andersson P, Harris SR, Smith HMBS, Hadfield J, O'Neill C, Cutcliffe LT, Douglas FP, Asche LV, Mathews JD, Hutton SI, Sarovich DS, Tong SYC, Clarke IN, Thomson NR, Giffard PM (2016). Chlamydia trachomatis from Australian Aboriginal people with trachoma are polyphyletic composed of multiple distinctive lineages. Nat Commun 7:10688
Sequence bin
- contigs
- 27
- total length
- 1,046,688 bp
- max length
- 598,701 bp
- mean length
- 38,767 bp
- N50
- 598,701
- L50
- 1
- N90
- 120,895
- L90
- 3
- N95
- 38,899
- L95
- 4
- %GC
- 41.23
- Ns
- 0
- gaps
- 0
- loci tagged
- 1,030
Annotation quality metrics
| Scheme | Scheme loci | Designated loci | Annotation | |
|---|---|---|---|---|
| Score | Status | |||
| C. trachomatis cgMLST v1.0 | 817 | 807 | 98 | |
Analysis
rMLST species identification
| Rank | Taxon | Taxonomy | Support | Matches |
|---|---|---|---|---|
| SPECIES | Chlamydia trachomatis | Chlamydiae > Chlamydiia > Chlamydiales > Chlamydiaceae > Chlamydia > Chlamydia trachomatis | 100% |
Analysis performed: 2021-03-15
Similar isolates (determined by classification schemes)
Experimental schemes are subject to change and are not a stable part of the nomenclature.
| Classification scheme | Underlying scheme | Clustering method | Mismatch threshold | Status | Group |
|---|---|---|---|---|---|
| Ct_cgc_200 | C. trachomatis cgMLST v1.0 | Single-linkage | 200 | experimental | 6 (101 isolates) |
| Ct_cgc_100 | C. trachomatis cgMLST v1.0 | Single-linkage | 100 | experimental | 45 (6 isolates) |
| Ct_cgc_50 | C. trachomatis cgMLST v1.0 | Single-linkage | 50 | experimental | 76 (6 isolates) |
| Ct_cgc_25 | C. trachomatis cgMLST v1.0 | Single-linkage | 25 | experimental | 129 (2 isolates) |
| Ct_cgc_10 | C. trachomatis cgMLST v1.0 | Single-linkage | 10 | experimental | 152 (2 isolates) |
| Ct_cgc_5 | C. trachomatis cgMLST v1.0 | Single-linkage | 5 | experimental | 160 (2 isolates) |
| Ct_cgc_200 | C. trachomatis cgMLST v1.0 | Single-linkage | 200 | experimental | 6 (101 isolates) |
| Ct_cgc_100 | C. trachomatis cgMLST v1.0 | Single-linkage | 100 | experimental | 45 (6 isolates) |
| Ct_cgc_50 | C. trachomatis cgMLST v1.0 | Single-linkage | 50 | experimental | 76 (6 isolates) |
| Ct_cgc_25 | C. trachomatis cgMLST v1.0 | Single-linkage | 25 | experimental | 129 (2 isolates) |
| Ct_cgc_10 | C. trachomatis cgMLST v1.0 | Single-linkage | 10 | experimental | 152 (2 isolates) |
| Ct_cgc_5 | C. trachomatis cgMLST v1.0 | Single-linkage | 5 | experimental | 160 (2 isolates) |
Schemes and loci
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Tools
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