Full information on isolate ERR4795484 (id:26301)
Provenance/primary metadata
- id
- 26301
- isolate
- ERR4795484
- aliases
- G18001061; GMR-RA 273.17; SAMEA5855695
- sender
- Sebastien Bridel, Institut Pasteur, Paris, France
- curator
- Auto Tagger
- update history
- 6 updates show details
- date entered
- 2023-02-15
- datestamp
- 2023-11-27
- taxonomic designation
- K. pneumoniae
- QC status
- 0000
- isolation year
- 2017
- city
- Antioquia
- country
- Colombia
- continent
- South America
- source type
- Human
- host
- Human
- source details
- Tracheal aspirate
Sequence bin
- contigs
- 69
- total length
- 5,638,259 bp
- max length
- 921,033 bp
- mean length
- 81,714 bp
- N50
- 335,053
- L50
- 6
- N90
- 78,062
- L90
- 20
- N95
- 38,193
- L95
- 26
- %GC
- 57.15
- Ns
- 194
- gaps
- 2
- loci tagged
- 693
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 | 626 | 99 | |
Analysis
Kleborate
- species
- Klebsiella pneumoniae
- species_match
- strong
- QC_warnings
- ambiguous_bases
- virulence_score
- 0
- resistance_score
- 2
- num_resistance_classes
- 5
- num_resistance_genes
- 11
- YbST
- 0
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi100
- K_locus
- KL10
- K_type
- K10
- K_locus_problems
- ?-
- K_locus_confidence
- Good
- K_locus_identity
- 96.70%
- K_locus_missing_genes
- KL10_18_manC,KL10_19_manB
- O_locus
- O3/O3a
- O_type
- O3/O3a
- O_locus_problems
- ?-
- O_locus_confidence
- Good
- O_locus_identity
- 97.99%
- O_locus_missing_genes
- O3/O3a_01_manC,O3/O3a_02_manB
- AGly_acquired
- aac(6')-Ib-cr.v2;aadA2
- Phe_acquired
- catB11;catB3.v2;cmlA6*
- Sul_acquired
- sul1*
- Bla_acquired
- CARB-2.v1^;OXA-1;TEM-1D.v1^
- Bla_Carb_acquired
- KPC-2;NDM-1
- Bla_chr
- SHV-1^
- truncated_resistance_hits
- OXA-9.v1*-42%;aac(6')-29a*?-0%
- spurious_resistance_hits
- sul2?-77%
Analysis performed: 2024-03-26; Kleborate v2.3.2
Similar isolates (determined by LIN codes)
- Scheme
- scgMLST629_S
- LIN code
- 0_0_46_5_17_0_0_0_0_0
Schemes and loci
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Tools
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