Full information on isolate 202303412 (id:1907)
Provenance/primary metadata
- id
- 1907
- isolate
- 202303412
- aliases
- Difco; KIT0248
- clade
- P2
- species
- broomii
- serogroup
- Unknown
- serovar
- Unknown
- sequencing year
- 2024
- world region
- Unknown
- country
- Unknown
- host
- unknown
- sample type
- unknown
- source lab
- KIT
- comments
- curation ongoing
- sender
- Jean-François Mariet
- curator
- Jean-François Mariet, Institut Pasteur, Paris, France (E-mail: jean-francois.mariet@pasteur.fr)
- update history
- 6 updates show details
- date entered
- 2024-10-31
- datestamp
- 2024-12-20
Versions
More than one version of this isolate record exist.
- Older versions
- 1612
Sequence bin
- method
- Oxford Nanopore
- contigs
- 4
- total length
- 4,628,972 bp
- max length
- 3,957,170 bp
- mean length
- 1,157,243 bp
- N50
- 3,957,170
- L50
- 1
- N90
- 440,766
- L90
- 2
- N95
- 440,766
- L95
- 2
- %GC
- 42.82
- Ns
- 0
- gaps
- 0
- loci tagged
- 598
Assembly checks
| Check | Status | Warn/fail reason |
|---|---|---|
| Number of contigs | ||
| Assembly size | ||
| Minimum N50 | ||
| %GC |
Annotation quality metrics
Scheme completion
| Scheme | Scheme loci | Designated loci | Annotation | |
|---|---|---|---|---|
| Score | Status | |||
| cgMLST | 545 | 529 | 97 | |
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 |
|---|---|---|---|---|---|
| Cluster_40_cgMLST | cgMLST | Single-linkage | 40 | experimental | 60 (2 isolates) |
| Test-50 | cgMLST | Single-linkage | 50 | experimental | 59 (2 isolates) |
| Test-30 | cgMLST | Single-linkage | 30 | experimental | 62 (2 isolates) |
| Test-60 | cgMLST | Single-linkage | 60 | experimental | 59 (2 isolates) |
| Test-80 | cgMLST | Single-linkage | 80 | experimental | 56 (2 isolates) |
| Cluster_40_cgMLST | cgMLST | Single-linkage | 40 | experimental | 60 (2 isolates) |
| Test-50 | cgMLST | Single-linkage | 50 | experimental | 59 (2 isolates) |
| Test-30 | cgMLST | Single-linkage | 30 | experimental | 62 (2 isolates) |
| Test-60 | cgMLST | Single-linkage | 60 | experimental | 59 (2 isolates) |
| Test-80 | cgMLST | Single-linkage | 80 | experimental | 56 (2 isolates) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
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