Full information on isolate M18 240603 (id:71108)
Projects
Provenance/primary metadata
- id
- 71108
- isolate
- M18 240603
- strain designation
- cnl: P1.7-2,13: F1-88: ST-1103 (cc41/44)
- alias
- WTCHG_734333_70465118
- country
- UK [England]
- continent
- Europe
- region
- North East
- year
- 2018
- epidemiological year
- 07/2018-06/2019
- disease
- invasive (unspecified/other)
- species
- Neisseria meningitidis
- serogroup
- NG
- genogroup
- cnl
- genogroup notes
- capsule null locus (cnl). Prediction code: https://github.com/ntopaz/characterize_neisseria_capsule.
- capsule group
- cnl
Tracking
- ENA run accession
- ERR3664484 www.ebi.ac.uk
- sender
- Aiswarya Lekshmi, Public Health England
- curator
- Auto Tagger
- update history
- 27 updates show details
- date entered
- 2019-12-19
- datestamp
- 2023-05-19
Secondary metadata
Sequence bin
- contigs
- 141
- total length
- 2,108,057 bp
- max length
- 138,376 bp
- mean length
- 14,951 bp
- N50
- 38,702
- L50
- 16
- N90
- 11,443
- L90
- 50
- N95
- 5,902
- L95
- 62
- %GC
- 51.79
- Ns
- 0
- gaps
- 0
- loci tagged
- 2,117
Annotation quality metrics
Provenance information
Missing field values for: age_range, 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 | 1407 | 98 |
Similar isolates (determined by classification schemes)
Some groups only contain this isolate. Show single groups
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 | 698 (3966 isolates) |
Bact_rmlstc_4 | Ribosomal MLST | Single-linkage | 4 | experimental | 4661 (9 isolates) |
Bact_rmlstc_3 | Ribosomal MLST | Single-linkage | 3 | experimental | 5401 (9 isolates) |
Bact_rmlstc_2 | Ribosomal MLST | Single-linkage | 2 | experimental | 6641 (8 isolates) |
Bact_rmlstc_1 | Ribosomal MLST | Single-linkage | 1 | experimental | 77754 (4 isolates) |
Nm_cgc_200 | N. meningitidis cgMLST v2 | Single-linkage | 200 | experimental | 94 (7 isolates) |
Nm_cgc_100 | N. meningitidis cgMLST v2 | Single-linkage | 100 | experimental | 4073 (4 isolates) |
Bact_rmlstc_5 | Ribosomal MLST | Single-linkage | 5 | experimental | 698 (3966 isolates) |
Bact_rmlstc_4 | Ribosomal MLST | Single-linkage | 4 | experimental | 4661 (9 isolates) |
Bact_rmlstc_3 | Ribosomal MLST | Single-linkage | 3 | experimental | 5401 (9 isolates) |
Bact_rmlstc_2 | Ribosomal MLST | Single-linkage | 2 | experimental | 6641 (8 isolates) |
Bact_rmlstc_1 | Ribosomal MLST | Single-linkage | 1 | experimental | 77754 (4 isolates) |
Nm_cgc_200 | N. meningitidis cgMLST v2 | Single-linkage | 200 | experimental | 94 (7 isolates) |
Nm_cgc_100 | N. meningitidis cgMLST v2 | Single-linkage | 100 | experimental | 4073 (4 isolates) |
Nm_cgc_50 | N. meningitidis cgMLST v2 | Single-linkage | 50 | experimental | 9452 (1 isolate) |
Nm_cgc_25 | N. meningitidis cgMLST v2 | Single-linkage | 25 | experimental | 13606 (1 isolate) |
Nm_cgc_10 | N. meningitidis cgMLST v2 | Single-linkage | 10 | experimental | 19242 (1 isolate) |
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
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