Full information on isolate ERR4784935 (id:25837)
Provenance/primary metadata
- id
- 25837
- isolate
- ERR4784935
- aliases
- G18255570; NIHR/BC/KPN-459; SAMEA6507327
- 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
- 2017
- city
- Mumbai; Maharashtra
- country
- India
- continent
- Asia
- source type
- Human
- host
- Human
- source details
- Bone
Sequence bin
- contigs
- 83
- total length
- 5,540,836 bp
- max length
- 587,996 bp
- mean length
- 66,758 bp
- N50
- 338,422
- L50
- 7
- N90
- 86,651
- L90
- 19
- N95
- 34,393
- L95
- 25
- %GC
- 57.07
- Ns
- 595
- gaps
- 6
- loci tagged
- 703
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
- 1
- resistance_score
- 2
- num_resistance_classes
- 7
- num_resistance_genes
- 7
- Yersiniabactin
- ybt 14; ICEKp5
- YbST
- 376-1LV
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi104
- K_locus
- KL51
- K_type
- K51
- K_locus_confidence
- High
- K_locus_identity
- 99.38%
- K_locus_missing_genes
- KL51_14_wcoZ
- O_locus
- O1/O2v2
- O_type
- O1
- O_locus_problems
- none
- O_locus_confidence
- Very high
- O_locus_identity
- 98.44%
- AGly_acquired
- aac(6')-Ib
- Flq_acquired
- qnrS1
- Phe_acquired
- catA1^
- Rif_acquired
- arr-2
- Bla_acquired
- TEM-1D.v1^
- Bla_ESBL_acquired
- CTX-M-15
- Bla_Carb_acquired
- OXA-232
- Bla_chr
- SHV-1^
- Omp_mutations
- OmpK35-30%;OmpK36TD
- Flq_mutations
- GyrA-83I;ParC-80I
- truncated_resistance_hits
- rmtF*?-0%
- ybtS
- 4
- ybtX
- 4
- ybtQ
- 5
- ybtP
- 4
- ybtA
- 1
- irp2
- 8
- irp1
- 8*
- ybtU
- 2
- ybtT
- 4
- ybtE
- 4
- fyuA
- 2
Analysis performed: 2024-03-27; Kleborate v2.3.2
Similar isolates (determined by LIN codes)
- Scheme
- scgMLST629_S
- LIN code
- 0_0_88_0_0_0_0_0_9_0
Schemes and loci
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Tools
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