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ASM1523518v1

Organism name:
Escherichia coli (E. coli)
Taxonomy check:
OK
Infraspecific name:
Strain: 19428wD4_HM13
BioSample:
SAMN16540200
BioProject:
PRJNA671681
Submitter:
King's College London
Date:
2020/11/04
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
GenBank assembly accession:
GCA_015235185.1 (latest)
RefSeq assembly accession:
GCF_015235185.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JADGMH01
Assembly method:
SPAdes v. 3.1.28
Expected final version:
yes
Genome coverage:
30x
Sequencing technology:
Illumina HiSeq

IDs: 8420881 [UID] 22917028 [GenBank] 22931538 [RefSeq]

See Genome Information for Escherichia coli

There are 265830 assemblies for this organism

See more

History (Show revision history)

Comment

The annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about PGAP 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::10/30/2020 18:55:32
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::4.13
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::4,858
CDSs (total)::4,753
Genes (coding)::4,625
CDSs (with protein)::4,625
Genes (RNA)::105
rRNAs::8, 8, 5 (5S, 16S, 23S)
complete rRNAs::8, 1 (5S, 23S)
partial rRNAs::8, 4 (16S, 23S)
tRNAs::78
ncRNAs::6
Pseudo Genes (total)::128
CDSs (without protein)::128
Pseudo Genes (ambiguous residues)::0 of 128
Pseudo Genes (frameshifted)::60 of 128
Pseudo Genes (incomplete)::73 of 128
Pseudo Genes (internal stop)::32 of 128
Pseudo Genes (multiple problems)::31 of 128
CRISPR Arrays::2
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,033,648
Total ungapped length5,033,648
Number of contigs110
Contig N50261,938
Contig L507
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)110

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
unplaced5,033,6481105,033,648261,93800

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_000013265.1Escherichia coli UTI89claderef

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000013265.1Escherichia colicladeref

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type99.0890.5387.97
Best-match type99.0890.5387.97

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna