Full information on isolate D1117 (id:1802)

Provenance/primary metadata

id
1802
isolate
D1117
alias
SRR1993455
country
USA
continent
North America
region
Vermont
year
1983
disease
gastroenteritis
source
human stool
epidemiology
general outbreak
species
Campylobacter jejuni
penner
2
ENA run accession
SRR1993455 www.ebi.ac.uk
sender
Andrew Sails, CDC, Atlanta, USA
curator
Auto Tagger
update history
41 updates show details
date entered
2002-07-15
datestamp
2022-08-25

Publication (1)

  • Hudson PJ, Vogt RL, Brondum J, Patton CM (1984). Isolation of Campylobacter jejuni from milk during an outbreak of campylobacteriosis. J Infect Dis 150:789

Sequence bin

contigs
28
total length
1,674,673 bp
max length
373,011 bp
mean length
59,810 bp
N50
161,362
L50
4
N90
79,914
L90
10
N95
72,726
L95
11
%GC
30.39
Ns
0
gaps
0
loci tagged
1,669

Show sequence bin

Annotation quality metrics

SchemeScheme lociDesignated lociAnnotation
ScoreStatus
MLST77100
Ribosomal MLST5353100
C. jejuni / C. coli cgMLST v1.01343133299

Analysis

rMLST species identification

RankTaxonTaxonomySupportMatches
SPECIES Campylobacter jejuni Proteobacteria > Epsilonproteobacteria > Campylobacterales > Campylobacteraceae > Campylobacter > Campylobacter jejuni 100%

Analysis performed: 2023-01-11

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
Cjc_cgc_200C. jejuni / C. coli cgMLST v1.0Single-linkage200experimental6 (1351 isolates)
Cjc_cgc_100C. jejuni / C. coli cgMLST v1.0Single-linkage100experimental60 (390 isolates)
Cjc_cgc_50C. jejuni / C. coli cgMLST v1.0Single-linkage50experimental7 (10 isolates)
Cjc_cgc_25C. jejuni / C. coli cgMLST v1.0Single-linkage25experimental7 (10 isolates)
Cjc_cgc_10C. jejuni / C. coli cgMLST v1.0Single-linkage10experimental7 (6 isolates)
Cjc_cgc_5C. jejuni / C. coli cgMLST v1.0Single-linkage5experimental7 (6 isolates)
Cjc_cgc_200C. jejuni / C. coli cgMLST v1.0Single-linkage200experimental6 (1351 isolates)
Cjc_cgc_100C. jejuni / C. coli cgMLST v1.0Single-linkage100experimental60 (390 isolates)
Cjc_cgc_50C. jejuni / C. coli cgMLST v1.0Single-linkage50experimental7 (10 isolates)
Cjc_cgc_25C. jejuni / C. coli cgMLST v1.0Single-linkage25experimental7 (10 isolates)
Cjc_cgc_10C. jejuni / C. coli cgMLST v1.0Single-linkage10experimental7 (6 isolates)
Cjc_cgc_5C. jejuni / C. coli cgMLST v1.0Single-linkage5experimental7 (6 isolates)

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