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Full information on isolate 900401 (id:43206)

Provenance/primary metadata

id
43206
isolate
900401
aliases
PRJEB8327; SAMEA3221654
country
USA
continent
North America
year
2006
serotype
11D
age yr
7
diagnosis
carriage
host
human
source
nasopharynx
ENA accession
ERR907578 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
9 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
63
total length
1,999,128 bp
max length
269,311 bp
mean length
31,733 bp
N50 contig number
8
N50 length (L50)
72,958
N90 contig number
23
N90 length (L90)
26,132
N95 contig number
27
N95 length (L95)
20,110
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)
Sp_cgc_25cgMLSTSingle-linkage25experimentalgroup: 2097 (8 isolates)
Sp_cgc_10cgMLSTSingle-linkage10experimentalgroup: 3205 (4 isolates)
Sp_cgc_5cgMLSTSingle-linkage5experimentalgroup: 3847 (4 isolates)

Schemes and loci

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