Full information on isolate A_D230 (id:4752)

Provenance/primary metadata

id
4752
isolate
A_D230
species
Chlamydia trachomatis
genovar
A
country
The Gambia
continent
Africa
year
2001
host
human
sex
female
source
ocular
comments
assembled with SPades
bioproject accession
PRJEB2035 www.ebi.ac.uk
biosample accession
SAMEA1398403 www.ebi.ac.uk
ENA run accession
ERR111554 www.ebi.ac.uk
sender
Odile Harrison, University of Oxford, UK
curator
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update history
8 updates show details
date entered
2022-06-15
datestamp
2022-12-01

Publication (1)

  • Hadfield J, Harris SR, Seth-Smith HMB, Parmar S, Andersson P, Giffard PM, Schachter J, Moncada J, Ellison L, Vaulet MLG, Fermepin MR, Radebe F, Mendoza S, Ouburg S, MorrĂ© SA, Sachse K, Puolakkainen M, Korhonen SJ, Sonnex C, Wiggins R, Jalal H, Brunelli T, Casprini P, Pitt R, Ison C, Savicheva A, Shipitsyna E, Hadad R, Kari L, Burton MJ, Mabey D, Solomon AW, Lewis D, Marsh P, Unemo M, Clarke IN, Parkhill J, Thomson NR (2017). Comprehensive global genome dynamics of Chlamydia trachomatis show ancient diversification followed by contemporary mixing and recent lineage expansion. Genome Res 27:1220-1229

Sequence bin

contigs
127
total length
2,026,719 bp
max length
562,758 bp
mean length
15,959 bp
N50
481,212
L50
2
N90
13,116
L90
25
N95
5,215
L95
38
%GC
34.30
Ns
0
gaps
0
loci tagged
804

Show sequence bin

Annotation quality metrics

SchemeScheme lociDesignated lociAnnotation
ScoreStatus
C. trachomatis cgMLST v1.081764178

Analysis

rMLST species identification

RankTaxonTaxonomySupportMatches
SPECIES Mesomycoplasma hyorhinis Tenericutes > Mollicutes > Mycoplasmatales > Mycoplasmataceae > Mesomycoplasma > Mesomycoplasma hyorhinis 46%
SPECIES Chlamydia trachomatis Chlamydiae > Chlamydiia > Chlamydiales > Chlamydiaceae > Chlamydia > Chlamydia trachomatis 45%
SPECIES Mycoplasmopsis arginini Tenericutes > Mollicutes > Mycoplasmatales > Mycoplasmataceae > Mycoplasmopsis > Mycoplasmopsis arginini 5%

Analysis performed: 2023-01-25

Schemes and loci

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