Full information on isolate 935_SEPI (id:201)
Provenance/primary metadata
- id
- 201
- isolate
- 935_SEPI
- world region
- North America
- country
- USA
- host
- Human
- source
- Unknown
- infection
- Unknown
- sender
- Julien Guglielmini, Institut Pasteur
- curator
- Auto Tagger
- update history
- 6 updates show details
- date entered
- 2016-05-23
- datestamp
- 2022-12-22
Publication (1)
- Roach DJ, Burton JN, Lee C, Stackhouse B, Butler-Wu SM, Cookson BT, Shendure J, Salipante SJ (2015). A Year of Infection in the Intensive Care Unit: Prospective Whole Genome Sequencing of Bacterial Clinical Isolates Reveals Cryptic Transmissions and Novel Microbiota. PLoS Genet 11:e1005413
Sequence bin
- contigs
- 131
- total length
- 2,494,024 bp
- max length
- 263,683 bp
- mean length
- 19,039 bp
- N50
- 59,893
- L50
- 14
- N90
- 12,139
- L90
- 51
- N95
- 7,266
- L95
- 64
- %GC
- 32.06
- 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
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