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CFSAN026788_02.0

Organism name:
Escherichia coli (E. coli)
Taxonomy check:
OK
Infraspecific name:
Strain: CFSAN026788
BioSample:
SAMN03455803
BioProject:
PRJNA230969
Submitter:
FDA/CFSAN
Date:
2015/05/22
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
GenBank assembly accession:
GCA_001012195.1 (latest)
RefSeq assembly accession:
GCF_001012195.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
LDDR01
Assembly method:
CLC Genomics Workbench v. 7.6.1
Genome coverage:
116x
Sequencing technology:
Illumina MiSeq

IDs: 342331 [UID] 1783598 [GenBank] 1786278 [RefSeq]

See Genome Information for Escherichia coli

There are 265156 assemblies for this organism

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History (Show revision history)

Comment

Bacterial culture available from Dwayne Roberson, FDA College Park Campus, 5100 Paint Branch Parkway, College Park, MD 20740.
Annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline can be found here: http://www.ncbi.nlm.nih.gov/genome/annotation_prok/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Date::04/01/2015 12:30:41
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Provider::NCBI
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Annotation Software revision::2.10 (rev. 462191)
Genes::5,489
CDS::5,207
Pseudo Genes::166
CRISPR Arrays::2
rRNAs::3 (5S, 16S, 23S)
tRNAs::93
ncRNA::20
Frameshifted Genes::83
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,209,585
Total ungapped length5,209,585
Number of contigs212
Contig N50104,173
Contig L5014
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)212

Supplemental Content

PubMed articles for this assembly

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Global assembly definition

Download the full sequence report
Click on the table row to see sequence details in the table to the right
Assembly Unit Name
Primary Assembly
The primary assembly unit does not have any assembled chromosomes or linkage groups.
Please download the full sequence report for information on the scaffolds.

Assembly statistics

MoleculeTotal
Length
Contig
Count
Ungapped
Length
Contig
N50
Spanned
Gaps
Unspanned
Gaps
unplaced5,209,5852125,209,585104,17300

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Escherichia coliEscherichia coli

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_000263895.1Escherichia coli O103:H25 str. CVM9340claderef

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000263895.1Escherichia colicladeref

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type99.0089.8588.98
Best-match type99.0089.8588.98

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna