Full information on isolate xz084 (id:1506)
Projects
This isolate is a member of the following project:
- Isolates Excluded (failed QC)
- KlebNET-GSP qc
Provenance/primary metadata
- id
- 1506
- isolate
- xz084
- sender
- Xiong Liu, Chinese PLA Center for Disease Control and Prevention
- curator
- Auto Tagger
- update history
- 10 updates show details
- date entered
- 2021-12-06
- datestamp
- 2023-11-22
- taxonomic designation
- K. pneumoniae
- QC status
- 0021
- isolation year
- 2018
- city
- Xuzhou
- country
- China
- continent
- Asia
- source type
- Human
- host
- human
- source details
- blood
- infection
- hospital infection
- accession number
- GCA_001590945.1
Sequence bin
- contigs
- 11
- total length
- 6,323,480 bp
- max length
- 5,396,535 bp
- mean length
- 574,862 bp
- N50
- 5,396,535
- L50
- 1
- N90
- 308,849
- L90
- 2
- N95
- 209,481
- L95
- 4
- %GC
- 56.02
- Ns
- 0
- gaps
- 0
- loci tagged
- 698
Assembly checks
| Check | Status | Warn/fail reason |
|---|---|---|
| Number of contigs | ||
| Assembly size | assembly size too large (fail threshold: 6,132,847) | |
| Minimum N50 | ||
| %GC | %GC too low (fail threshold: 56.351) |
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 | 626 | 99 | |
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
Kleborate
- species
- Klebsiella pneumoniae
- species_match
- strong
- virulence_score
- 0
- resistance_score
- 2
- num_resistance_classes
- 8
- num_resistance_genes
- 12
- YbST
- 0
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi362
- K_locus
- KL130
- K_type
- unknown (KL130)
- K_locus_problems
- none
- K_locus_confidence
- Very high
- K_locus_identity
- 99.27%
- O_locus
- O1/O2v2
- O_type
- O1
- O_locus_problems
- none
- O_locus_confidence
- Very high
- O_locus_identity
- 99.02%
- AGly_acquired
- aadA16*
- Fcyn_acquired
- fosA3
- MLS_acquired
- mphA;mphE.v2;msrE
- Rif_acquired
- arr-3
- Sul_acquired
- sul1;sul1
- Tet_acquired
- tet(D)
- Tmt_acquired
- dfrA27
- Bla_Carb_acquired
- IMP-4;KPC-2
- Bla_chr
- SHV-1^
- spurious_resistance_hits
- fosA7*?-0%
Analysis performed: 2023-07-21; Kleborate v2.3.2
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 (13436 isolates) |
| klebs_subspecies_v1.0 | scgMLST629_S | Single-linkage | 585 | experimental | 1 (13415 isolates) |
| klebs_sublineage_v1.0 | scgMLST629_S | Single-linkage | 190 | experimental | 43 (28 isolates) |
| klebs_clonalgroup_v1.0 | scgMLST629_S | Single-linkage | 43 | experimental | 227 (8 isolates) |
| klebs_species_v1.0 | scgMLST629_S | Single-linkage | 610 | experimental | 1 (13436 isolates) |
| klebs_subspecies_v1.0 | scgMLST629_S | Single-linkage | 585 | experimental | 1 (13415 isolates) |
| klebs_sublineage_v1.0 | scgMLST629_S | Single-linkage | 190 | experimental | 43 (28 isolates) |
| klebs_clonalgroup_v1.0 | scgMLST629_S | Single-linkage | 43 | experimental | 227 (8 isolates) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
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