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ASM989632v1

Organism name:
Escherichia coli (E. coli)
Taxonomy check:
OK
Infraspecific name:
Strain: BIOML-A190
BioSample:
SAMN11945736
BioProject:
PRJNA544527
Submitter:
Massachusetts Institute of Technology
Date:
2020/01/16
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Excluded from RefSeq:
  • from large multi-isolate project
GenBank assembly accession:
GCA_009896325.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
WXHX01
Assembly method:
SPAdes v. 3.9.1
Expected final version:
yes
Genome coverage:
47.76x
Sequencing technology:
Illumina NextSeq

IDs: 5474381 [UID] 15845208 [GenBank]

See Genome Information for Escherichia coli

There are 273094 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
Annotation Date::01/10/2020 03:54:47
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::4.10
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::5,199
CDSs (total)::5,114
Genes (coding)::4,895
CDSs (with protein)::4,895
Genes (RNA)::85
rRNAs::3, 2, 1 (5S, 16S, 23S)
complete rRNAs::2, 1, 1 (5S, 16S, 23S)
partial rRNAs::1, 1 (5S, 16S)
tRNAs::74
ncRNAs::5
Pseudo Genes (total)::219
CDSs (without protein)::219
Pseudo Genes (ambiguous residues)::0 of 219
Pseudo Genes (frameshifted)::62 of 219
Pseudo Genes (incomplete)::145 of 219
Pseudo Genes (internal stop)::33 of 219
Pseudo Genes (multiple problems)::17 of 219
CRISPR Arrays::2
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,133,136
Total ungapped length5,131,467
Gaps between scaffolds0
Number of scaffolds193
Scaffold N5058,246
Scaffold L5025
Number of contigs216
Contig N5055,258
Contig L5027
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)193

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
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
unplaced5,133,1361935,131,46758,246230

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_000019645.1Escherichia coli SMS-3-5claderef

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000019645.1Escherichia colicladeref

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type98.4985.3683.99
Best-match type98.4985.3683.99

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna