Full information on isolate Klebsequi138 (id:15696)
Provenance/primary metadata
- id
- 15696
- isolate
- Klebsequi138
- sender
- François Gravey, CHU de Caen, France
- curator
- Auto Tagger
- update history
- 8 updates show details
- date entered
- 2021-03-03
- datestamp
- 2023-01-22
- taxonomic designation
- K. pneumoniae
- isolation year
- 2020
- city
- Unknown
- country
- France
- continent
- Europe
- source type
- Animal
- host
- Horse
- source details
- Unknown
- infection
- Unknown
- source lab
- LABEO
- resistance info
- Cotrimoxazole resistance
Sequence bin
- contigs
- 96
- total length
- 5,363,324 bp
- max length
- 331,072 bp
- mean length
- 55,868 bp
- N50
- 186,282
- L50
- 11
- N90
- 43,633
- L90
- 31
- N95
- 22,054
- L95
- 40
- %GC
- 57.45
- Ns
- 810
- gaps
- 20
- loci tagged
- 705
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 | |||
| MLST | 7 | 7 | 100 | |
| Ribosomal MLST | 53 | 53 | 100 | |
| scgMLST629_S | 629 | 628 | 99 | |
Analysis
rMLST species identification
| Rank | Taxon | Taxonomy | Support | Matches |
|---|---|---|---|---|
| SPECIES | Klebsiella pneumoniae | Proteobacteria > Gammaproteobacteria > Enterobacterales > Enterobacteriaceae > Klebsiella > Klebsiella pneumoniae | 100% |
Analysis performed: 2022-12-16
Kleborate
- species
- Klebsiella pneumoniae
- species_match
- strong
- QC_warnings
- ambiguous_bases
- virulence_score
- 0
- resistance_score
- 0
- num_resistance_classes
- 6
- num_resistance_genes
- 6
- YbST
- 0
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi97
- K_locus
- unknown (KL50)
- K_type
- unknown (K50)
- K_locus_problems
- ?-+*
- K_locus_confidence
- None
- K_locus_identity
- 92.83%
- K_locus_missing_genes
- KL50_05_wbaZ,KL50_06_wbaP,KL50_07_wcuU,KL50_08_wcuH,KL50_09_wzx
- O_locus
- O3b
- O_type
- O3b
- O_locus_problems
- ?-
- O_locus_confidence
- Good
- O_locus_identity
- 99.23%
- O_locus_missing_genes
- O3b_01_manC,O3b_02_manB
- AGly_acquired
- aadA1.v1^
- MLS_acquired
- mphB.v1
- Phe_acquired
- catA1^
- Sul_acquired
- sul1
- Tet_acquired
- tet(A).v1
- Tmt_acquired
- dfrA1.v2
- Bla_chr
- SHV-1
Analysis performed: 2024-03-22; Kleborate v2.3.2
Similar isolates (determined by classification schemes)
Some groups only contain this isolate. Show single groups
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 |
|---|---|---|---|---|---|
| klebs_species_v1.0 | scgMLST629_S | Single-linkage | 610 | experimental | 1 (13437 isolates) |
| klebs_subspecies_v1.0 | scgMLST629_S | Single-linkage | 585 | experimental | 1 (13416 isolates) |
| klebs_sublineage_v1.0 | scgMLST629_S | Single-linkage | 190 | experimental | 1029 (5 isolates) |
| klebs_species_v1.0 | scgMLST629_S | Single-linkage | 610 | experimental | 1 (13437 isolates) |
| klebs_subspecies_v1.0 | scgMLST629_S | Single-linkage | 585 | experimental | 1 (13416 isolates) |
| klebs_sublineage_v1.0 | scgMLST629_S | Single-linkage | 190 | experimental | 1029 (5 isolates) |
| klebs_clonalgroup_v1.0 | scgMLST629_S | Single-linkage | 43 | experimental | 2211 (1 isolate) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
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