Full information on isolate G18253166 (id:16056)
Provenance/primary metadata
- id
- 16056
- isolate
- G18253166
- sender
- K L Ravi Kumar, Kempegowda Institute of Medical Sciences, India
- curator
- Auto Tagger
- update history
- 8 updates show details
- date entered
- 2021-06-18
- datestamp
- 2023-01-22
- taxonomic designation
- K. pneumoniae
- isolation year
- 2019
- city
- Mumbai
- country
- India
- continent
- Asia
- source type
- Human
- host
- Human
- source details
- Blood
- infection
- colonization
- resistance info
- OXA-1; SHV-28; TEM-1D;OXA-232;CTX-M-15
- virulence info
- Enterobactin, TYPE1_FIMBRIAE, TYPE3_FIMBRIAE, Aerobactin, Yersiniabactin
- K type
- KL51
- K typing method
- Other
- accession number
- ERR4635631
Sequence bin
- contigs
- 490
- total length
- 6,066,488 bp
- max length
- 608,689 bp
- mean length
- 12,381 bp
- N50
- 333,532
- L50
- 8
- N90
- 7,505
- L90
- 39
- N95
- 1,577
- L95
- 153
- %GC
- 56.37
- Ns
- 1329
- gaps
- 43
- loci tagged
- 727
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 | |
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
- QC_warnings
- ambiguous_bases
- virulence_score
- 4
- resistance_score
- 2
- num_resistance_classes
- 9
- num_resistance_genes
- 16
- Yersiniabactin
- ybt 14; ICEKp5
- YbST
- 376
- CbST
- 0
- Aerobactin
- iuc 5 (truncated)
- AbST
- 61-3LV
- SmST
- 0
- RmST
- 0
- wzi
- wzi104
- K_locus
- KL51
- K_type
- K51
- K_locus_confidence
- High
- K_locus_identity
- 99.39%
- K_locus_missing_genes
- KL51_14_wcoZ
- O_locus
- O1/O2v2
- O_type
- O1
- O_locus_problems
- none
- O_locus_confidence
- Very high
- O_locus_identity
- 98.44%
- AGly_acquired
- aac(6')-Ib;aadA2^;aph(3')-VI*;sat-2
- Flq_acquired
- qnrB1.v2^;qnrS1
- MLS_acquired
- ermB.v1*;mphA;mphE.v2^
- Phe_acquired
- catA1^
- Rif_acquired
- arr-2
- Sul_acquired
- sul1
- Tmt_acquired
- dfrA12
- Bla_acquired
- OXA-1;TEM-1D.v1^
- Bla_Carb_acquired
- OXA-232
- Bla_chr
- SHV-1^
- Omp_mutations
- OmpK35-30%;OmpK36TD
- Flq_mutations
- GyrA-83I;ParC-80I
- truncated_resistance_hits
- CTX-M-15?-0%;rmtF*?-0%
- spurious_resistance_hits
- CatB4.v1?-41%;NDM-1*?-0%;armA*?-0%;msrE?-0%
- ybtS
- 4
- ybtX
- 4
- ybtQ
- 5
- ybtP
- 4
- ybtA
- 1
- irp2
- 8
- irp1
- 8
- ybtU
- 2
- ybtT
- 4
- ybtE
- 4
- fyuA
- 2
- iucA
- 29*-0%
- iucB
- 17
- iucC
- 35
- iucD
- 35
- iutA
- 61
Analysis performed: 2024-03-23; 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 (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 | 48 (88 isolates) |
| klebs_clonalgroup_v1.0 | scgMLST629_S | Single-linkage | 43 | experimental | 49 (82 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 | 48 (88 isolates) |
| klebs_clonalgroup_v1.0 | scgMLST629_S | Single-linkage | 43 | experimental | 49 (82 isolates) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
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