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ASM388613v1

Organism name:
Escherichia coli (E. coli)
Taxonomy check:
OK
Infraspecific name:
Strain: UMB1727
BioSample:
SAMN09665203
BioProject:
PRJNA316969
Submitter:
Loyola University Chicago
Date:
2018/12/06
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
GenBank assembly accession:
GCA_003886135.1 (latest)
RefSeq assembly accession:
GCF_003886135.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
RRVG01
Assembly method:
SPAdes v. 3.11.1
Expected final version:
yes
Genome coverage:
66.47x
Sequencing technology:
Illumina MiSeq

IDs: 2140701 [UID] 8013058 [GenBank] 8068498 [RefSeq]

See Genome Information for Escherichia coli

There are 266204 assemblies for this organism

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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://www.ncbi.nlm.nih.gov/genome/annotation_prok/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI
Annotation Date::12/01/2018 20:50:22
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)::5,539
CDSs (total)::5,437
Genes (coding)::5,287
CDSs (with protein)::5,287
Genes (RNA)::102
rRNAs::7, 2, 4 (5S, 16S, 23S)
complete rRNAs::6 (5S)
partial rRNAs::1, 2, 4 (5S, 16S, 23S)
tRNAs::80
ncRNAs::9
Pseudo Genes (total)::150
CDSs (without protein)::150
Pseudo Genes (ambiguous residues)::0 of 150
Pseudo Genes (frameshifted)::54 of 150
Pseudo Genes (incomplete)::80 of 150
Pseudo Genes (internal stop)::34 of 150
Pseudo Genes (multiple problems)::17 of 150
CRISPR Arrays::2
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,424,027
Total ungapped length5,424,027
Number of contigs112
Contig N50129,958
Contig L5013
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)112

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
Contig
Count
Ungapped
Length
Contig
N50
Spanned
Gaps
Unspanned
Gaps
unplaced5,424,0271125,424,027129,95800

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 type99.8492.7495.49
Best-match type99.8492.7495.49

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna