Full information on isolate SRR8738485 (id:44412)
Provenance/primary metadata
- id
- 44412
- isolate
- SRR8738485
- aliases
- AS004855; SAMN11125745
- 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
- 2001
- city
- Detroit Medical Center
- country
- USA
- continent
- North America
- source type
- Human
- host
- Human
- source details
- Unknown
Sequence bin
- contigs
- 94
- total length
- 5,722,300 bp
- max length
- 481,837 bp
- mean length
- 60,876 bp
- N50
- 219,232
- L50
- 10
- N90
- 53,695
- L90
- 31
- N95
- 34,915
- L95
- 38
- %GC
- 57.03
- Ns
- 882
- gaps
- 9
- 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
- 0
- num_resistance_classes
- 3
- num_resistance_genes
- 6
- Yersiniabactin
- ybt 17; ICEKp10
- YbST
- 289-2LV
- Colibactin
- clb 3
- CbST
- 17
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi7
- K_locus
- unknown (KL7)
- K_type
- unknown (K7)
- K_locus_problems
- ?-
- K_locus_confidence
- None
- K_locus_identity
- 98.32%
- K_locus_missing_genes
- KL7_07_wcuE,KL7_08_wckC,KL7_09_wcuC,KL7_10_wzy,KL7_11_wckD,KL7_12_wclS,KL7_13_wcuJ,KL7_14_wzx
- O_locus
- O1/O2v1
- O_type
- O1
- O_locus_problems
- none
- O_locus_confidence
- Very high
- O_locus_identity
- 98.61%
- AGly_acquired
- aac(6')-Ib'.v1;ant(2'')-Ia
- Sul_acquired
- sul1
- Bla_acquired
- OXA-2;OXA-9.v1;TEM-1D.v1^
- truncated_resistance_hits
- SHV-105*?-0%;aadA?-86%
- spurious_resistance_hits
- aadA6*
- ybtS
- 6
- ybtX
- 15
- ybtQ
- 5
- ybtP
- 4
- ybtA
- 11
- irp2
- 28*
- irp1
- 26*
- ybtU
- 2
- ybtT
- 11
- ybtE
- 4
- fyuA
- 2
- clbA
- 2
- clbB
- 10
- clbC
- 2
- clbD
- 2
- clbE
- 2
- clbF
- 2
- clbG
- 2
- clbH
- 8
- clbI
- 2
- clbL
- 2
- clbM
- 2
- clbN
- 2
- clbO
- 2
- clbP
- 2
- clbQ
- 2
Analysis performed: 2024-04-12; Kleborate v2.3.2
Similar isolates (determined by LIN codes)
- Scheme
- scgMLST629_S
- LIN code
- 0_0_127_5_6_0_0_0_0_0
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
Export:
Third party:
Analysis: