Full information on isolate BT15864V3C (id:120773)
Provenance/primary metadata
- id
- 120773
- isolate
- BT15864V3C
- strain designation
- cnl: P1.7-2,13: F1-88: ST-1103 (cc41/44)
- country
- UK [England]
- continent
- Europe
- year
- 2019
- epidemiological year
- 07/2010-06/2020
- age yr
- 17
- age range
- 15-24
- sex
- female
- disease
- carrier
- source
- throat swab
- epidemiology
- carrier
- species
- Neisseria meningitidis
- genogroup
- cnl
- genogroup notes
- capsule null locus (cnl). Prediction code: https://github.com/ntopaz/characterize_neisseria_capsule.
- capsule group
- cnl
Tracking
- ENA run accession
- ERR10229521 www.ebi.ac.uk
- sender
- Jeremy Carr, University of Oxford
- curator
- Auto Tagger
- update history
- 18 updates show details
- date entered
- 2022-09-22
- datestamp
- 2023-05-19
Secondary metadata
Sequence bin
- contigs
- 139
- total length
- 2,143,572 bp
- max length
- 162,630 bp
- mean length
- 15,422 bp
- N50
- 43,461
- L50
- 13
- N90
- 13,774
- L90
- 43
- N95
- 6,266
- L95
- 54
- %GC
- 51.85
- Ns
- 0
- gaps
- 0
- loci tagged
- 2,149
Annotation quality metrics
Provenance information
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 | 1416 | 99 |
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 (3935 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 (3935 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 | 6726 (1 isolate) |
Nm_cgc_25 | N. meningitidis cgMLST v2 | Single-linkage | 25 | experimental | 9024 (1 isolate) |
Nm_cgc_10 | N. meningitidis cgMLST v2 | Single-linkage | 10 | experimental | 12220 (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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