Full information on isolate B5055 (id:1680)
Projects
Provenance/primary metadata
- id
- 1680
- isolate
- B5055
- alias
- CIP 52.145
- sender
- Suzanne Bialek, AP-HP
- curator
- Sebastien Bridel, Institut Pasteur, Paris, France (E-mail: sbridel@pasteur.fr)
- update history
- 36 updates show details
- date entered
- 2013-07-01
- datestamp
- 2022-11-03
- taxonomic designation
- K. pneumoniae
- QC status
- 0100
- country
- Unknown
- source type
- Unknown
- host
- Unknown
- source details
- Unknown
- K type
- K2
- K typing method
- Antiserum
- duplicate number
- 4
- accession number
- AQCG01
Sequence bin
- contigs
- 1,859
- total length
- 5,530,318 bp
- max length
- 30,495 bp
- mean length
- 2,975 bp
- N50
- 5,068
- L50
- 319
- N90
- 1,475
- L90
- 1,071
- N95
- 946
- L95
- 1,303
- %GC
- 56.79
- Ns
- 0
- gaps
- 0
- loci tagged
- 2,152
Assembly checks
| Check | Status | Warn/fail reason |
|---|---|---|
| Number of contigs | too many contigs (fail threshold: 501) | |
| Assembly size | ||
| Minimum N50 | N50 too low (fail threshold: 10,000) | |
| %GC |
Annotation quality metrics
Scheme completion
| Scheme | Scheme loci | Designated loci | Annotation | |
|---|---|---|---|---|
| Score | Status | |||
| MLST | 7 | 5 | 71 | |
| Ribosomal MLST | 53 | 51 | 96 | |
| scgMLST629_S | 629 | 501 | 79 | |
Analysis
rMLST species identification
| Rank | Taxon | Taxonomy | Support | Matches |
|---|---|---|---|---|
| SPECIES | Klebsiella pneumoniae | Proteobacteria > Gammaproteobacteria > Enterobacterales > Enterobacteriaceae > Klebsiella > Klebsiella pneumoniae | 100% |
Analysis performed: 2022-11-02
Kleborate
- species
- Klebsiella pneumoniae
- species_match
- strong
- QC_warnings
- N50
- virulence_score
- 5
- resistance_score
- 0
- num_resistance_classes
- 1
- num_resistance_genes
- 0
- Yersiniabactin
- ybt 12; ICEKp10 (incomplete) (truncated)
- YbST
- 315-4LV
- Colibactin
- clb 1 (incomplete)
- CbST
- 9-6LV
- Aerobactin
- iuc 2 (incomplete)
- AbST
- 24-1LV
- Salmochelin
- iro 2
- SmST
- 22
- RmST
- 0
- wzi
- wzi4
- K_locus
- unknown (KL2)
- K_type
- unknown (K2)
- K_locus_problems
- ?-+
- K_locus_confidence
- None
- K_locus_identity
- 98.30%
- K_locus_missing_genes
- KL2_04_wza,KL2_07,KL2_09,KL2_11_wzx,KL2_13,KL2_15_gnd,KL2_17_manB
- O_locus
- O1/O2v2
- O_type
- O1
- O_locus_problems
- ?-
- O_locus_confidence
- Good
- O_locus_identity
- 99.00%
- O_locus_missing_genes
- O1/O2v2_01_wzm,O1/O2v2_03_wbbM,O1/O2v2_07_kfoC
- Col_mutations
- PmrB-24%
- ybtS
- 7*-0%
- ybtQ
- 1
- ybtP
- 1
- ybtA
- 1
- ybtU
- 1
- ybtT
- 1
- ybtE
- 1
- fyuA
- 1
- clbA
- 1
- clbC
- 1
- clbD
- 1
- clbE
- 5
- clbF
- 1
- clbG
- 1
- clbH
- 5*
- clbN
- 1
- clbO
- 1
- clbP
- 1
- clbQ
- 1
- iucA
- 2
- iucB
- 6
- iucC
- 5
- iucD
- 6
- iroB
- 4
- iroC
- 9
- iroD
- 5
- iroN
- 4
- rmpD
- 32
- spurious_virulence_hits
- irp1_245*-0%;irp2_20*-0%;ybtX_1*-53%;ybtX_1*-0%;clbB_4*-0%;clbL_1*-0%;clbI_1*-0%;clbM_8*-0%;iutA_8*-0%;iutA_2*-46%;rmpA_91*-0%;rmpA_82*-0%;rmpA_9*-0%;rmpC_10*-0%;rmpC_18*-0%
Analysis performed: 2024-02-09; Kleborate v2.3.2
Schemes and loci
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