Full information on isolate KP_NORM_BLD_13129 (id:10005)
Provenance/primary metadata
- id
- 10005
- isolate
- KP_NORM_BLD_13129
- sender
- Marit Andrea Klokkhammer Hetland, Stavanger University Hospital, Department of Medical Microbiology, Norway
- curator
- Auto Tagger
- update history
- 13 updates show details
- embargo history
- show details
- date entered
- 2019-10-16
- datestamp
- 2026-03-13
- taxonomic designation
- K. pneumoniae
- QC status
- 0000
- isolation year
- 2001
- country
- Norway
- continent
- Europe
- host
- Homo sapiens
- source details
- Blood
Sequence bin
- method
- Illumina
- contigs
- 169
- total length
- 5,400,556 bp
- max length
- 401,142 bp
- mean length
- 31,956 bp
- N50
- 142,555
- L50
- 13
- N90
- 40,030
- L90
- 42
- N95
- 18,536
- L95
- 52
- %GC
- 57.35
- Ns
- 0
- gaps
- 0
- loci tagged
- 3,430
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 | 627 | 99 | |
| Kpn_cgMLST | 2752 | 2723 | 98 | |
Analysis
rMLST species identification
| Rank | Taxon | Taxonomy | Support | Matches |
|---|---|---|---|---|
| SPECIES | Klebsiella pneumoniae | Proteobacteria > Gammaproteobacteria > Enterobacterales > Enterobacteriaceae > Klebsiella > Klebsiella pneumoniae | 100% |
Analysis performed: 2022-11-02
Kaptive
| Database | Best match locus | Best match type | Match confidence | Problems | Identity | Coverage | Length discrepancy | Expected genes in locus | Missing expected genes | Other genes in locus | Other genes in locus, details | Expected genes outside locus | Expected genes outside locus, details | Other genes outside locus | Other genes outside locus, details | Truncated genes, details | Extra genes, details |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Klebsiella K locus | KL7 | K7 | Typeable | ?2 | 99.52% | 100.00% | n/a | 20 / 20 (100.00%) | 0 | 0 / 20 (0.00%) | 2 | KL40_05_rfaG,97.89%,99.74%;KL150_19_gmd,98.50%,100.00% | |||||
| Klebsiella O locus | OL2α.1 | O1αβ,2α | Typeable | 99.43% | 100.00% | -1 bp | 7 / 7 (100.00%) | 0 | 0 / 7 (0.00%) | 2 | OL3γ_01_manC,99.79%,100.00%;OL3γ_02_manB,99.55%,97.39% | Extra_genes_wbbYZ_02_wbbY,99.73%,100.00%;Extra_genes_wbbYZ_01_wbbZ,99.26%,100.00% |
Klebsiella K locus
Klebsiella O locus
Analysis performed: 2026-03-13; Kaptive Version 3.1.0. Citation: Stanton et al. (2025) bioRxiv 2025.02.05.636613.
Kleborate
- species
- Klebsiella pneumoniae
- species_match
- strong
- YbST
- 0
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- virulence_score
- 0
- Bla_chr
- SHV-1
- resistance_score
- 0
- num_resistance_classes
- 0
- num_resistance_genes
- 0
- Ciprofloxacin_prediction
- wildtype S
- Ciprofloxacin_profile_support
- 90.99% S (N=5168/5680)
- Ciprofloxacin_profile
- 0^ QRDR, 0 PMQR, 0 aac(6`)-Ib-cr
- Ciprofloxacin_MIC_prediction
- 0.25 mg/L [0.25-0.25]
- wzi
- wzi7
- K_locus
- KL7
- K_type
- K7
- K_locus_confidence
- Typeable
- K_locus_problems
- ?2
- K_locus_identity
- 99.52%
- O_locus
- OL2α.1
- O_type
- O1αβ,2α
- O_locus_confidence
- Typeable
- O_locus_identity
- 99.43%
Analysis performed: 2026-03-14; Kleborate v3.2.4
Similar isolates (determined by LIN codes)
- Scheme
- scgMLST629_S
- LIN code
- 0_0_127_10_1_1_0_0_0_0
- Phylogroup
- Kp1
- Sublineage
- SL6
- Clonal group
- CG10691
| Prefix | Threshold | Matching isolates |
|---|---|---|
| 0_0_127_10_1_1 | 7 | 1 |
| 0_0_127_10_1_1_0 | 4 | 1 |
| 0_0_127_10_1_1_0_0 | 2 | 1 |
| 0_0_127_10_1_1_0_0_0 | 1 | 1 |
| 0_0_127_10_1_1_0_0_0_0 | 0 | 1 |
| 0 | 610 | 41312 |
| 0_0 | 585 | 41312 |
| 0_0_127 | 190 | 121 |
| 0_0_127_10 | 43 | 23 |
| 0_0_127_10_1 | 10 | 5 |
| 0_0_127_10_1_1 | 7 | 1 |
| 0_0_127_10_1_1_0 | 4 | 1 |
| 0_0_127_10_1_1_0_0 | 2 | 1 |
| 0_0_127_10_1_1_0_0_0 | 1 | 1 |
| 0_0_127_10_1_1_0_0_0_0 | 0 | 1 |
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 |
|---|---|---|---|---|---|
| klebs_species_v1.0 | scgMLST629_S | Single-linkage | 610 | experimental | 1 (16003 isolates) |
| klebs_subspecies_v1.0 | scgMLST629_S | Single-linkage | 585 | experimental | 1 (15951 isolates) |
| klebs_sublineage_v1.0 | scgMLST629_S | Single-linkage | 190 | experimental | 95 (53 isolates) |
| klebs_clonalgroup_v1.0 | scgMLST629_S | Single-linkage | 43 | experimental | 1668 (6 isolates) |
| klebs_species_v1.0 | scgMLST629_S | Single-linkage | 610 | experimental | 1 (16003 isolates) |
| klebs_subspecies_v1.0 | scgMLST629_S | Single-linkage | 585 | experimental | 1 (15951 isolates) |
| klebs_sublineage_v1.0 | scgMLST629_S | Single-linkage | 190 | experimental | 95 (53 isolates) |
| klebs_clonalgroup_v1.0 | scgMLST629_S | Single-linkage | 43 | experimental | 1668 (6 isolates) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
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