Full information on isolate DEN178 (id:249)
Provenance/primary metadata
- id
- 249
- isolate
- DEN178
- isolation year
- 1998
- world region
- Europe
- country
- Denmark
- host
- Human
- other strain info
- ST5 ; CC2 ; group A
- source
- Blood
- infection
- Infection
- other infection info
- Disease
- MSSE MRSE
- MRSE
- SCCmec type
- IV
- sender
- Julien Guglielmini, Institut Pasteur
- curator
- Auto Tagger
- update history
- 7 updates show details
- date entered
- 2016-05-23
- datestamp
- 2022-12-22
Publication (1)
- Méric G, Miragaia M, de Been M, Yahara K, Pascoe B, Mageiros L, Mikhail J, Harris LG, Wilkinson TS, Rolo J, Lamble S, Bray JE, Jolley KA, Hanage WP, Bowden R, Maiden MC, Mack D, de Lencastre H, Feil EJ, Corander J, Sheppard SK (2015). Ecological Overlap and Horizontal Gene Transfer in Staphylococcus aureus and Staphylococcus epidermidis. Genome Biol Evol 7:1313-28
Sequence bin
- contigs
- 122
- total length
- 2,540,240 bp
- max length
- 548,900 bp
- mean length
- 20,822 bp
- N50
- 95,874
- L50
- 7
- N90
- 21,583
- L90
- 27
- N95
- 11,110
- L95
- 36
- %GC
- 32.08
- Ns
- 0
- gaps
- 0
- loci tagged
- 766
Assembly checks
| Check | Status | Warn/fail reason |
|---|---|---|
| Number of contigs | ||
| Assembly size | ||
| Minimum N50 | ||
| %GC |
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 |
|---|---|---|---|---|---|
| Clustering-134 | cgMLST | Single-linkage | 134 | experimental | 6 (41 isolates) |
| Clustering-468 | cgMLST | Single-linkage | 468 | experimental | 1 (417 isolates) |
| test-105 | cgMLST | Single-linkage | 105 | experimental | 6 (41 isolates) |
| Clustering-134 | cgMLST | Single-linkage | 134 | experimental | 6 (41 isolates) |
| Clustering-468 | cgMLST | Single-linkage | 468 | experimental | 1 (417 isolates) |
| test-105 | cgMLST | Single-linkage | 105 | experimental | 6 (41 isolates) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
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