Full information on isolate DRR150588 (id:23621)
Provenance/primary metadata
- id
- 23621
- isolate
- DRR150588
- alias
- SAMD00138043
- sender
- Sebastien Bridel, Institut Pasteur, Paris, France
- curator
- Martin Rethoret-Pasty, Institut Pasteur, Paris, France (E-mail: martin.rethoret-pasty@pasteur.fr)
- update history
- 8 updates show details
- date entered
- 2023-02-15
- datestamp
- 2024-06-03
- taxonomic designation
- K. pneumoniae
- QC status
- 0000
- isolation year
- 2017
- city
- Surin
- country
- Thailand
- continent
- Asia
- source type
- Human
- host
- Human
- source details
- Unknown
Sequence bin
- method
- Unknown
- contigs
- 86
- total length
- 5,582,005 bp
- max length
- 935,527 bp
- mean length
- 64,908 bp
- N50
- 451,781
- L50
- 5
- N90
- 57,076
- L90
- 18
- N95
- 26,250
- L95
- 25
- %GC
- 57.06
- Ns
- 196
- gaps
- 2
- loci tagged
- 704
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 | Pseudomonadota > Gammaproteobacteria > Enterobacterales > Enterobacteriaceae > Klebsiella > Klebsiella pneumoniae | 100% |
Analysis performed: 2023-12-14
Kleborate
- species
- Klebsiella pneumoniae
- species_match
- strong
- QC_warnings
- ambiguous_bases
- YbST
- 376-1LV
- Yersiniabactin
- ybt 14; ICEKp5
- ybtS
- 4
- ybtX
- 4
- ybtQ
- 5
- ybtP
- 4
- ybtA
- 1
- irp2
- 8
- irp1
- 8*
- ybtU
- 2
- ybtT
- 4
- ybtE
- 4
- fyuA
- 2
- CbST
- 0
- AbST
- 61-3LV
- Aerobactin
- iuc 5
- iucA
- 29
- iucB
- 17
- iucC
- 28
- iucD
- 35
- iutA
- 61
- SmST
- 0
- RmST
- 0
- virulence_score
- 4
- AGly_acquired
- aadA16*;rmtF
- Flq_acquired
- qnrB6^;qnrS1
- MLS_acquired
- Mrx;mphA;ermB.v1*
- Phe_acquired
- catA1^
- Rif_acquired
- arr-3
- Sul_acquired
- sul1;sul1
- Tet_acquired
- tet(A).v1
- Tmt_acquired
- dfrA27
- Bla_ESBL_acquired
- SHV-12
- Bla_Carb_acquired
- OXA-232
- SHV_mutations
- SHV:p.Leu35Gln;SHV:p.Gly238Ser;SHV:p.Glu240Lys
- Omp_mutations
- OmpK36:p.136_137insThrAsp;OmpK35:p.Glu107fs
- Flq_mutations
- GyrA:p.Ser83Ile;ParC:p.Ser80Ile
- spurious_resistance_hits
- CTX-M-114?-0%
- resistance_score
- 2
- num_resistance_classes
- 11
- num_resistance_genes
- 16
- Ciprofloxacin_prediction
- nonwildtype R
- Ciprofloxacin_profile_support
- 99.22% R (N=2424/2443)
- Ciprofloxacin_profile
- >0 QRDR, >0 PMQR, * aac(6`)-Ib-cr
- Ciprofloxacin_MIC_prediction
- 4 mg/L [4-4]
- wzi
- wzi104
- K_locus
- KL51
- K_type
- K51
- K_locus_confidence
- Typeable
- K_locus_problems
- !
- K_locus_identity
- 99.72%
- O_locus
- OL2α.2
- O_type
- O1αβ,2β
- O_locus_confidence
- Typeable
- O_locus_identity
- 99.13%
Analysis performed: 2026-01-15; Kleborate v3.2.4
Similar isolates (determined by LIN codes)
- Scheme
- scgMLST629_S
- LIN code
- 0_0_88_0_0_0_26_0_2_0
- Phylogroup
- Kp1
- Sublineage
- SL231
- Clonal group
- CG231
| Prefix | Threshold | Matching isolates |
|---|---|---|
| 0_0_88_0_0_0 | 7 | 470 |
| 0_0_88_0_0_0_26 | 4 | 35 |
| 0_0_88_0_0_0_26_0 | 2 | 33 |
| 0_0_88_0_0_0_26_0_2 | 1 | 9 |
| 0_0_88_0_0_0_26_0_2_0 | 0 | 9 |
| 0 | 610 | 41312 |
| 0_0 | 585 | 41312 |
| 0_0_88 | 190 | 528 |
| 0_0_88_0 | 43 | 517 |
| 0_0_88_0_0 | 10 | 505 |
| 0_0_88_0_0_0 | 7 | 470 |
| 0_0_88_0_0_0_26 | 4 | 35 |
| 0_0_88_0_0_0_26_0 | 2 | 33 |
| 0_0_88_0_0_0_26_0_2 | 1 | 9 |
| 0_0_88_0_0_0_26_0_2_0 | 0 | 9 |
Schemes and loci
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Tools
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