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ASM3178709v1

Organism name:
Escherichia coli (E. coli)
Taxonomy check:
OK
Infraspecific name:
Strain: M21816
BioSample:
SAMN37196943
BioProject:
PRJNA1006687
Submitter:
INEI - ANLIS Dr. Carlos G. Malbran
Date:
2023/09/20
Assembly type:
na
Assembly level:
Complete Genome
Genome representation:
full
GenBank assembly accession:
GCA_031787095.1 (latest)
RefSeq assembly accession:
GCF_031787095.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
Unicycler v. v0.4.8-beta
Expected final version:
yes
Genome coverage:
125x
Sequencing technology:
Illumina MiSeq + Oxford Nanopore MinION

IDs: 18706901 [UID] 47780148 [GenBank] 47863648 [RefSeq]

See Genome Information for Escherichia coli

There are 278965 assemblies for this organism

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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 RefSeq
Annotation Date::09/23/2023 15:46:12
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::6.6
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA
Genes (total)::5,449
CDSs (total)::5,335
Genes (coding)::5,135
CDSs (with protein)::5,135
Genes (RNA)::114
rRNAs::8, 7, 7 (5S, 16S, 23S)
complete rRNAs::8, 7, 7 (5S, 16S, 23S)
tRNAs::87
ncRNAs::5
Pseudo Genes (total)::200
CDSs (without protein)::200
Pseudo Genes (ambiguous residues)::0 of 200
Pseudo Genes (frameshifted)::80 of 200
Pseudo Genes (incomplete)::136 of 200
Pseudo Genes (internal stop)::47 of 200
Pseudo Genes (multiple problems)::56 of 200
Pseudo Genes (short protein)::3 of 200
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,536,423
Total ungapped length5,536,423
Total number of chromosomes and plasmids4

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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
Assembly Unit: Primary Assembly (GCF_031787105.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome CP133923.1=NZ_CP133923.1
Plasmid pEco_M21816_111CP133926.1=NZ_CP133926.1
Plasmid pEco_M21816_136CP133925.1=NZ_CP133925.1
Plasmid pEco_M21816_274CP133924.1=NZ_CP133924.1

Assembly statistics

MoleculeTotal
Length
All5,536,423
Chromosome 5,014,829
Plasmid pEco_M21816_111111,125
Plasmid pEco_M21816_136136,236
Plasmid pEco_M21816_274274,233

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_024519395.1Escherichia coli DSM 30083 = JCM 1649 = ATCC 11775neotype

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_024519395.1Escherichia colineotype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type99.5887.9691.10
Best-match type99.5887.9691.10

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna