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ASM21476v3

Organism name:
Escherichia coli NA114 (E. coli)
Taxonomy check:
OK
Infraspecific name:
Strain: NA114
BioSample:
SAMN02603711
BioProject:
PRJNA66975
Submitter:
Pathogen Biology Laboratory, Department of Biotechnology, University of Hyderabad
Date:
2016/11/28
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
GenBank assembly accession:
GCA_000214765.3 (latest)
RefSeq assembly accession:
GCF_000214765.2 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
MIPU01
Assembly method:
SPAdes v. 3.6.1
Expected final version:
no
Genome coverage:
480.0x
Sequencing technology:
Illumina MiSeq

IDs: 894911 [UID] 3745998 [GenBank] 3766188 [RefSeq]

See Genome Information for Escherichia coli

There are 270135 assemblies for this organism

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History (Show revision history)

Comment

This project replaces CP002797 at the submitter's request because it was created with newer technology and has multiple contigs.
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::09/12/2016 16:31:47
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::3.3
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::5,341
CDS (total)::5,236
Genes (coding)::5,088
CDS (coding)::5,088
Genes (RNA)::105
rRNAs::7, 9, 3 (5S, 16S, 23S)
complete rRNAs::7, 1, 1 (5S, 16S, 23S)
partial rRNAs::8, 2 (16S, 23S)
tRNAs::81
ncRNAs::5
Pseudo Genes (total)::148
Pseudo Genes (ambiguous residues)::0 of 148
Pseudo Genes (frameshifted)::52 of 148
Pseudo Genes (incomplete)::95 of 148
Pseudo Genes (internal stop)::19 of 148
Pseudo Genes (multiple problems)::18 of 148
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,246,175
Total ungapped length5,246,175
Number of contigs105
Contig N50209,213
Contig L508
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)105

Supplemental Content

PubMed articles for this assembly

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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
unplaced5,246,1751055,246,175209,21300

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Escherichia coli NA114Escherichia 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 type99.8896.7494.94
Best-match type99.8896.7494.94

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna