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ASM438026v1

Organism name:
Escherichia coli (E. coli)
Taxonomy check:
OK
Infraspecific name:
Strain: 2700-1
BioSample:
SAMN06011339
BioProject:
PRJNA353170
Submitter:
Hvidovre Hospital - University of Copenhagen
Date:
2019/03/26
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_004380265.1 (latest)
RefSeq assembly accession:
GCF_004380265.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
MTXB01
Assembly method:
SPAdes v. 3.5.0
Expected final version:
yes
Genome coverage:
51x
Sequencing technology:
Illumina

IDs: 2360891 [UID] 8798998 [GenBank] 8952488 [RefSeq]

See Genome Information for Escherichia coli

There are 266954 assemblies for this organism

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History (Show revision history)

Comment

Bacteria and source DNA available from Kristian Schonning.
Annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline can be found here: https://0-www-ncbi-nlm-nih-gov.brum.beds.ac.uk/genome/annotation_prok/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI
Annotation Date::01/26/2017 16:20:29
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::4.0
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::5,949
CDS (total)::5,860
Genes (coding)::5,584
CDS (coding)::5,584
Genes (RNA)::89
rRNAs::3, 1, 1 (5S, 16S, 23S)
complete rRNAs::2, 1, 1 (5S, 16S, 23S)
partial rRNAs::1 (5S)
tRNAs::72
ncRNAs::12
Pseudo Genes (total)::276
Pseudo Genes (ambiguous residues)::1 of 276
Pseudo Genes (frameshifted)::125 of 276
Pseudo Genes (incomplete)::108 of 276
Pseudo Genes (internal stop)::90 of 276
Pseudo Genes (multiple problems)::46 of 276
CRISPR Arrays::2
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,400,624
Total ungapped length5,399,765
Gaps between scaffolds0
Number of scaffolds200
Scaffold N50143,836
Scaffold L5013
Number of contigs205
Contig N50116,888
Contig L5015
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)200

Supplemental Content

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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
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
unplaced5,400,6242005,399,765143,83650

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_000459055.1Escherichia coli HVH 200 (4-4449924)claderef

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000459055.1Escherichia colicladeref

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type99.7988.8591.04
Best-match type99.7988.8591.04

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna