Full information on isolate SRR13077372 (id:32160)
Provenance/primary metadata
- id
- 32160
- isolate
- SRR13077372
- alias
- SAMN16824671
- sender
- Sebastien Bridel, Institut Pasteur, Paris, France
- curator
- Martin Rethoret-Pasty, Institut Pasteur, Paris, France (E-mail: martin.rethoret-pasty@pasteur.fr)
- update history
- 7 updates show details
- date entered
- 2023-02-15
- datestamp
- 2024-06-03
- taxonomic designation
- K. pneumoniae
- QC status
- 0000
- isolation year
- 2016
- city
- Unknown
- country
- Singapore
- continent
- Asia
- source type
- Human
- host
- Human
- source details
- Acute Care Hospital
Sequence bin
- contigs
- 156
- total length
- 5,625,450 bp
- max length
- 474,494 bp
- mean length
- 36,061 bp
- N50
- 163,236
- L50
- 10
- N90
- 26,264
- L90
- 41
- N95
- 9,402
- L95
- 59
- %GC
- 56.78
- Ns
- 394
- gaps
- 4
- loci tagged
- 695
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
- 0
- resistance_score
- 1
- num_resistance_classes
- 8
- num_resistance_genes
- 18
- YbST
- 0
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi38
- K_locus
- KL38
- K_type
- K38
- K_locus_problems
- none
- K_locus_confidence
- Very high
- K_locus_identity
- 98.19%
- O_locus
- O1/O2v1
- O_type
- O1
- O_locus_problems
- none
- O_locus_confidence
- Very high
- O_locus_identity
- 98.24%
- AGly_acquired
- aac(6')-Ib-cr.v2;aadA5;strA.v1^;strB.v1
- Flq_acquired
- qnrB1.v2^;qnrB4;qnrS1
- Phe_acquired
- CatB4.v1?
- Sul_acquired
- sul1;sul2
- Tet_acquired
- tet(A).v1
- Tmt_acquired
- dfrA1.v2;dfrA14.v2*
- Bla_acquired
- DHA-1;OXA-1;TEM-1D.v1^
- Bla_ESBL_acquired
- CTX-M-15;CTX-M-9
- Bla_chr
- SHV-1
Analysis performed: 2024-03-28; Kleborate v2.3.2
Similar isolates (determined by LIN codes)
- Scheme
- scgMLST629_S
- LIN code
- 0_0_127_7_2_0_1_0_0_0
Schemes and loci
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Tools
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