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ASM438065v1

Organism name:
Escherichia coli (E. coli)
Taxonomy check:
OK
Infraspecific name:
Strain: E23
BioSample:
SAMN06011358
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_004380655.1 (latest)
RefSeq assembly accession:
GCF_004380655.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
MTXU01
Assembly method:
SPAdes v. 3.5.0
Expected final version:
yes
Genome coverage:
59x
Sequencing technology:
Illumina

IDs: 2361081 [UID] 8799358 [GenBank] 8954288 [RefSeq]

See Genome Information for Escherichia coli

There are 265896 assemblies for this organism

See more

History (Show revision history)

Comment

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/
Bacteria and source DNA available from Kristian Schonning.

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI
Annotation Date::01/26/2017 16:17:18
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)::5,553
CDS (total)::5,454
Genes (coding)::5,201
CDS (coding)::5,201
Genes (RNA)::99
rRNAs::7, 2, 1 (5S, 16S, 23S)
complete rRNAs::7, 1, 1 (5S, 16S, 23S)
partial rRNAs::1 (16S)
tRNAs::78
ncRNAs::11
Pseudo Genes (total)::253
Pseudo Genes (ambiguous residues)::0 of 253
Pseudo Genes (frameshifted)::100 of 253
Pseudo Genes (incomplete)::117 of 253
Pseudo Genes (internal stop)::72 of 253
Pseudo Genes (multiple problems)::35 of 253
CRISPR Arrays::1
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,213,033
Total ungapped length5,212,710
Gaps between scaffolds0
Number of scaffolds132
Scaffold N50100,149
Scaffold L5016
Number of contigs133
Contig N50100,149
Contig L5016
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)132

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
unplaced5,213,0331325,212,710100,14910

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_000350825.1Escherichia coli KTE26claderef

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000350825.1Escherichia colicladeref

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type98.3587.6286.71
Best-match type98.3587.6286.71

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna