U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Download Assembly



ASM438017v1

Organism name:
Escherichia coli (E. coli)
Taxonomy check:
OK
Infraspecific name:
Strain: 1276-1
BioSample:
SAMN06011336
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_004380175.1 (latest)
RefSeq assembly accession:
GCF_004380175.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
MTWY01
Assembly method:
SPAdes v. 3.5.0
Expected final version:
yes
Genome coverage:
25x
Sequencing technology:
Illumina

IDs: 2360831 [UID] 8798878 [GenBank] 8953378 [RefSeq]

See Genome Information for Escherichia coli

There are 264989 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 15:56:59
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)::5,284
CDS (total)::5,197
Genes (coding)::4,973
CDS (coding)::4,973
Genes (RNA)::87
rRNAs::2, 2, 2 (5S, 16S, 23S)
complete rRNAs::2, 1, 1 (5S, 16S, 23S)
partial rRNAs::1, 1 (16S, 23S)
tRNAs::75
ncRNAs::6
Pseudo Genes (total)::224
Pseudo Genes (ambiguous residues)::0 of 224
Pseudo Genes (frameshifted)::87 of 224
Pseudo Genes (incomplete)::95 of 224
Pseudo Genes (internal stop)::73 of 224
Pseudo Genes (multiple problems)::30 of 224
CRISPR Arrays::2
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,030,699
Total ungapped length5,029,262
Gaps between scaffolds0
Number of scaffolds110
Scaffold N50181,315
Scaffold L5010
Number of contigs113
Contig N50181,315
Contig L5010
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)110

Supplemental Content

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...

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
unplaced5,030,6991105,029,262181,31530

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_001865905.1Escherichia colicladeref

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_001865905.1Escherichia colicladeref

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type99.7695.6088.33
Best-match type99.7695.6088.33

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna