Full information on isolate Z5463 (id:17882)
Provenance/primary metadata
- id
- 17882
- isolate
- Z5463
- strain designation
- A: P1.7,13-1: F1-5: ST-4 (cc4)
- alias
- Z814
- country
- The Gambia
- continent
- Africa
- species
- Neisseria meningitidis
- serogroup
- A
- genogroup
- A
- genogroup notes
- A backbone: internal stop in csaB,internal stop in csaD,internal stop in ctrE. Prediction code: https://github.com/ntopaz/characterize_neisseria_capsule.
- capsule group
- A
- type strain
- 0
Tracking
- sender
- Xavier Nassif, Faculte Necker-Enfants Malades, 156 Rue de Vaugirard, 75015, Paris, France
- curator
- Auto Tagger
- update history
- 175 updates show details
- date entered
- 2011-01-04
- datestamp
- 2023-07-10
Secondary metadata
Publications (2)
- Omer H, Rose G, Jolley KA, Frapy E, Zahar JR, Maiden MC, Bentley SD, Tinsley CR, Nassif X, Bille E (2011). Genotypic and phenotypic modifications of Neisseria meningitidis after an accidental human passage. PLoS One 6:e17145
- Watkins ER, Maiden MC (2017). Metabolic shift in the emergence of hyperinvasive pandemic meningococcal lineages. Sci Rep 7:41126
Sequence bin
- contigs
- 1,083
- total length
- 4,145,238 bp
- max length
- 65,364 bp
- mean length
- 3,828 bp
- N50
- 7,301
- L50
- 154
- N90
- 1,872
- L90
- 564
- N95
- 1,091
- L95
- 709
- %GC
- 52.13
- Ns
- 2182
- gaps
- 444
- loci tagged
- 2,146
Annotation quality metrics
Provenance information
Missing field values for: year, age_range, disease, source
Scheme completion
Scheme | Scheme loci | Designated loci | Annotation | |
---|---|---|---|---|
Score | Status | |||
rplF species | 1 | 1 | 100 | |
Finetyping antigens | 3 | 3 | 100 | |
Bexsero Antigen Sequence Typing (BAST) | 5 | 5 | 100 | |
MLST | 7 | 7 | 100 | |
Ribosomal MLST | 53 | 53 | 100 | |
N. meningitidis cgMLST v2 | 1422 | 1388 | 97 |
Similar isolates (determined by classification schemes)
Experimental schemes are subject to change and are not a stable part of the nomenclature.
Classification scheme | Underlying scheme | Clustering method | Mismatch threshold | Status | Group |
---|---|---|---|---|---|
Bact_rmlstc_5 | Ribosomal MLST | Single-linkage | 5 | experimental | 691 (461 isolates) |
Bact_rmlstc_4 | Ribosomal MLST | Single-linkage | 4 | experimental | 789 (461 isolates) |
Bact_rmlstc_3 | Ribosomal MLST | Single-linkage | 3 | experimental | 967 (461 isolates) |
Bact_rmlstc_2 | Ribosomal MLST | Single-linkage | 2 | experimental | 1110 (23 isolates) |
Bact_rmlstc_1 | Ribosomal MLST | Single-linkage | 1 | experimental | 1579 (20 isolates) |
Bact_rmlstc_5 | Ribosomal MLST | Single-linkage | 5 | experimental | 691 (461 isolates) |
Bact_rmlstc_4 | Ribosomal MLST | Single-linkage | 4 | experimental | 789 (461 isolates) |
Bact_rmlstc_3 | Ribosomal MLST | Single-linkage | 3 | experimental | 967 (461 isolates) |
Bact_rmlstc_2 | Ribosomal MLST | Single-linkage | 2 | experimental | 1110 (23 isolates) |
Bact_rmlstc_1 | Ribosomal MLST | Single-linkage | 1 | experimental | 1579 (20 isolates) |
Schemes and loci
- All loci
- Capsule
- Genetic Information Processing
- Genomic islands
- Lineage Schemes
- Metabolism
- Peptidoglycan Biosynthesis
- Pilin
- Typing
- Other schemes
- Loci not in schemes
Navigate and select schemes within tree to display allele designations
Tools
Export:
Analysis: