Full information on isolate SRR13181861 (id:34775)
Provenance/primary metadata
- id
- 34775
- isolate
- SRR13181861
- alias
- SAMN16981265
- sender
- Sebastien Bridel, Institut Pasteur, Paris, France
- curator
- Auto Tagger
- update history
- 6 updates show details
- date entered
- 2023-02-15
- datestamp
- 2023-11-23
- 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
- 131
- total length
- 5,811,338 bp
- max length
- 518,505 bp
- mean length
- 44,362 bp
- N50
- 118,782
- L50
- 13
- N90
- 35,093
- L90
- 46
- N95
- 17,633
- L95
- 57
- %GC
- 56.63
- Ns
- 1119
- gaps
- 14
- loci tagged
- 687
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
Kleborate
- species
- Klebsiella pneumoniae
- species_match
- strong
- QC_warnings
- ambiguous_bases
- virulence_score
- 0
- resistance_score
- 2
- num_resistance_classes
- 6
- num_resistance_genes
- 5
- YbST
- 0
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi7
- K_locus
- unknown (KL7)
- K_type
- unknown (K7)
- K_locus_problems
- ?-
- K_locus_confidence
- Low
- K_locus_identity
- 97.93%
- K_locus_missing_genes
- KL7_01_galF,KL7_02_cpsACP,KL7_09_wcuC
- O_locus
- O1/O2v1
- O_type
- O1
- O_locus_problems
- ?-
- O_locus_confidence
- Good
- O_locus_identity
- 98.59%
- O_locus_missing_genes
- O1/O2v1_06_wbbO
- Phe_acquired
- floR.v2*
- Sul_acquired
- sul2
- Tmt_acquired
- dfrA14.v2*
- Bla_acquired
- TEM-1D.v1^
- Bla_Carb_acquired
- KPC-3
- Flq_mutations
- GyrA-83F;GyrA-87G;ParC-80I
- truncated_resistance_hits
- SHV-129?-81%;aac(6')-Ib'.v1*?-87%
Analysis performed: 2024-04-06; Kleborate v2.3.2
Similar isolates (determined by LIN codes)
- Scheme
- scgMLST629_S
- LIN code
- 0_0_127_5_0_2_0_0_0_0
Schemes and loci
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Tools
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