Full information on isolate 1366_21A (id:22351)
Provenance/primary metadata
- id
- 22351
- isolate
- 1366_21A
- sender
- Carlos Camargo, Instituto Adolfo Lutz, Brazil
- curator
- Auto Tagger
- update history
- 8 updates show details
- date entered
- 2022-09-20
- datestamp
- 2023-11-22
- taxonomic designation
- K. quasipneumoniae subsp. similipneumoniae
- QC status
- 0000
- isolation year
- 2019
- city
- 2021
- country
- Brazil
- continent
- South America
- source type
- Human
- host
- Human
- source details
- Surveillance swab
Sequence bin
- method
- Illumina
- contigs
- 138
- total length
- 5,533,282 bp
- max length
- 472,200 bp
- mean length
- 40,097 bp
- N50
- 180,459
- L50
- 10
- N90
- 27,739
- L90
- 37
- N95
- 11,442
- L95
- 51
- %GC
- 57.53
- Ns
- 5545
- gaps
- 102
- loci tagged
- 689
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 | 609 | 96 | |
Analysis
rMLST species identification
| Rank | Taxon | Taxonomy | Support | Matches |
|---|---|---|---|---|
| SPECIES | Klebsiella quasipneumoniae | Proteobacteria > Gammaproteobacteria > Enterobacterales > Enterobacteriaceae > Klebsiella > Klebsiella quasipneumoniae | 100% |
Analysis performed: 2022-11-02
Kleborate
- species
- Klebsiella quasipneumoniae subsp. similipneumoniae
- species_match
- strong
- QC_warnings
- ambiguous_bases
- virulence_score
- 0
- resistance_score
- 2
- num_resistance_classes
- 5
- num_resistance_genes
- 5
- YbST
- 0
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi29
- K_locus
- KL106
- K_type
- unknown (KL106)
- K_locus_problems
- ?-
- K_locus_confidence
- Good
- K_locus_identity
- 99.60%
- K_locus_missing_genes
- KL106_17
- O_locus
- O3b
- O_type
- O3b
- O_locus_problems
- none
- O_locus_confidence
- Very high
- O_locus_identity
- 99.15%
- AGly_acquired
- aph(3')-VI
- Flq_acquired
- qnrE1
- Bla_acquired
- TEM-1D.v1^
- Bla_ESBL_acquired
- CTX-M-8
- Bla_Carb_acquired
- NDM-1
- Bla_chr
- OKP-B-9*
Analysis performed: 2025-05-12; Kleborate v2.3.2
Similar isolates (determined by LIN codes)
- Scheme
- scgMLST629_S
- LIN code
- 2_1_32_5_0_0_0_0_0_0
- Phylogroup
- Kp4
- Sublineage
- SL367
- Clonal group
- CG12436
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 (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 | 42 (11 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 | 42 (11 isolates) |
| klebs_clonalgroup_v1.0 | scgMLST629_S | Single-linkage | 43 | experimental | 3633 (1 isolate) |
Schemes and loci
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Tools
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