U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Download Assembly



ASM388637v1

Organism name:
Escherichia coli (E. coli)
Taxonomy check:
OK
Infraspecific name:
Strain: UMB1223
BioSample:
SAMN09665185
BioProject:
PRJNA316969
Submitter:
Loyola University Chicago
Date:
2018/12/06
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
GenBank assembly accession:
GCA_003886375.1 (latest)
RefSeq assembly accession:
GCF_003886375.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
RRVY01
Assembly method:
SPAdes v. 3.11.1
Expected final version:
yes
Genome coverage:
87.31x
Sequencing technology:
Illumina MiSeq

IDs: 2140801 [UID] 8013278 [GenBank] 8067738 [RefSeq]

See Genome Information for Escherichia coli

There are 266204 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/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI
Annotation Date::12/01/2018 22:46:29
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::4.7
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::5,305
CDSs (total)::5,201
Genes (coding)::5,027
CDSs (with protein)::5,027
Genes (RNA)::104
rRNAs::7, 2, 6 (5S, 16S, 23S)
complete rRNAs::5 (5S)
partial rRNAs::2, 2, 6 (5S, 16S, 23S)
tRNAs::80
ncRNAs::9
Pseudo Genes (total)::174
CDSs (without protein)::174
Pseudo Genes (ambiguous residues)::0 of 174
Pseudo Genes (frameshifted)::69 of 174
Pseudo Genes (incomplete)::92 of 174
Pseudo Genes (internal stop)::48 of 174
Pseudo Genes (multiple problems)::30 of 174
CRISPR Arrays::2
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,313,703
Total ungapped length5,313,703
Number of contigs84
Contig N50166,145
Contig L509
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)84

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
Contig
Count
Ungapped
Length
Contig
N50
Spanned
Gaps
Unspanned
Gaps
unplaced5,313,703845,313,703166,14500

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 type99.7596.3897.22
Best-match type99.7596.3897.22

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna