Full information on isolate SRR13086317 (id:37227)
Provenance/primary metadata
- id
- 37227
- isolate
- SRR13086317
- alias
- SAMN16823579
- sender
- Sebastien Bridel, Institut Pasteur, Paris, France
- curator
- Auto Tagger
- update history
- 5 updates show details
- date entered
- 2023-02-15
- datestamp
- 2023-04-17
- taxonomic designation
- K. pneumoniae
- QC status
- 0000
- isolation year
- 2018
- city
- Unknown
- country
- USA
- continent
- North America
- source type
- Human
- host
- Human
- source details
- urine isolate
Sequence bin
- contigs
- 92
- total length
- 5,717,593 bp
- max length
- 510,466 bp
- mean length
- 62,148 bp
- N50
- 242,700
- L50
- 9
- N90
- 65,294
- L90
- 25
- N95
- 27,060
- L95
- 31
- %GC
- 57.14
- Ns
- 384
- gaps
- 5
- loci tagged
- 688
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 | 628 | 99 | |
Analysis
Kleborate
- species
- Klebsiella pneumoniae
- species_match
- strong
- QC_warnings
- ambiguous_bases
- virulence_score
- 2
- resistance_score
- 2
- num_resistance_classes
- 4
- num_resistance_genes
- 4
- Yersiniabactin
- ybt unknown
- YbST
- 0
- Colibactin
- clb 3
- CbST
- 13
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi7
- K_locus
- KL7
- K_type
- K7
- K_locus_problems
- none
- K_locus_confidence
- Very high
- K_locus_identity
- 98.54%
- O_locus
- O1/O2v1
- O_type
- O1
- O_locus_problems
- none
- O_locus_confidence
- Very high
- O_locus_identity
- 98.62%
- Sul_acquired
- sul1
- Tmt_acquired
- dfrA14.v2*;dfrA15.v2
- Bla_Carb_acquired
- KPC-3
- Bla_chr
- SHV-1
- Flq_mutations
- GyrA-83F
- ybtS
- 22*
- ybtX
- 22
- ybtQ
- 6
- ybtP
- 24
- ybtA
- 16
- irp2
- 366
- irp1
- 455
- ybtU
- 2
- ybtT
- 11
- ybtE
- 4
- fyuA
- 2
- clbA
- 2
- clbB
- 10
- clbC
- 2
- clbD
- 2
- clbE
- 2
- clbF
- 2
- clbG
- 2
- clbH
- 3
- clbI
- 2
- clbL
- 2
- clbM
- 2
- clbN
- 2
- clbO
- 2
- clbP
- 2
- clbQ
- 2
Analysis performed: 2024-04-11; Kleborate v2.3.2
Similar isolates (determined by LIN codes)
- Scheme
- scgMLST629_S
- LIN code
- 0_0_127_5_7_0_0_0_0_0
Schemes and loci
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Tools
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