PubMLST Database home Contents
Log in
Help

Full information on isolate JHZ8673 (id:43199)

Provenance/primary metadata

id
43199
isolate
JHZ8673
aliases
PRJEB8327; SAMEA3221647
country
USA
continent
North America
year
1999
serotype
11D
diagnosis
carriage
host
human
source
nasopharynx
comments
Age <6m
ENA accession
ERR907571 www.ebi.ac.uk
sender
Melissa Jansen van Rensburg
curator
Melissa Jansen van Rensburg, University of Oxford, UK (E-mail: Melissa.JansenvanRensburg@ndph.ox.ac.uk)
update history
10 updates show details
date entered
2019-03-25
datestamp
2020-04-08

Publication (1)

  • Azarian T, Grant LR, Arnold BJ, Hammitt LL, Reid R, Santosham M, Weatherholtz R, Goklish N, Thompson CM, Bentley SD, O'Brien KL, Hanage WP, Lipsitch M (2018). The impact of serotype-specific vaccination on phylodynamic parameters of Streptococcus pneumoniae and the pneumococcal pan-genome. PLoS Pathog 14:e1006966

Sequence bin

contigs
70
total length
2,011,853 bp
max length
269,296 bp
mean length
28,741 bp
N50 contig number
8
N50 length (L50)
71,697
N90 contig number
23
N90 length (L90)
26,124
N95 contig number
28
N95 length (L95)
14,622
loci tagged
1,404
detailed breakdown
Display

Similar isolates (determined by classification schemes)

Experimental schemes are subject to change and are not a stable part of the nomenclature.

Classification schemeUnderlying schemeClustering methodMismatch thresholdStatusGroup
Sp_cgc_1000cgMLSTSingle-linkage1000experimentalgroup: 4 (827 isolates)
Sp_cgc_500cgMLSTSingle-linkage500experimentalgroup: 4 (309 isolates)
Sp_cgc_400cgMLSTSingle-linkage400experimentalgroup: 4 (231 isolates)
Sp_cgc_300cgMLSTSingle-linkage300experimentalgroup: 4 (231 isolates)
Sp_cgc_200cgMLSTSingle-linkage200experimentalgroup: 4 (230 isolates)
Sp_cgc_100cgMLSTSingle-linkage100experimentalgroup: 4 (123 isolates)
Sp_cgc_50cgMLSTSingle-linkage50experimentalgroup: 4 (25 isolates)

Schemes and loci

Navigate and select schemes within tree to display allele designations

Tools

Analysis: