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ASM1168403v1

Organism name:
Agrobacterium tumefaciens (Agrobacterium genomosp. 1)
Taxonomy check:
OK
Infraspecific name:
Culture-collection: ATCC:4720
Infraspecific name:
Strain: ATCC 4720
BioSample:
SAMN14391717
BioProject:
PRJNA613057
Submitter:
Universidad de Salamanca
Date:
2020/03/23
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
Relation to type material:
assembly from type material
GenBank assembly accession:
GCA_011684035.1 (latest)
RefSeq assembly accession:
GCF_011684035.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JAAQPP01
Assembly method:
Velvet v. 1.2.1
Expected final version:
yes
Genome coverage:
30x
Sequencing technology:
Illumina MiSeq

IDs: 6399371 [UID] 18034398 [GenBank] 18119018 [RefSeq]

See Genome Information for Agrobacterium tumefaciens

There are 261 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::03/18/2020 20:02:27
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::4.11
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::5,559
CDSs (total)::5,504
Genes (coding)::5,393
CDSs (with protein)::5,393
Genes (RNA)::55
rRNAs::1, 1, 1 (5S, 16S, 23S)
complete rRNAs::1, 1, 1 (5S, 16S, 23S)
tRNAs::48
ncRNAs::4
Pseudo Genes (total)::111
CDSs (without protein)::111
Pseudo Genes (ambiguous residues)::0 of 111
Pseudo Genes (frameshifted)::49 of 111
Pseudo Genes (incomplete)::61 of 111
Pseudo Genes (internal stop)::22 of 111
Pseudo Genes (multiple problems)::19 of 111
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,907,662
Total ungapped length5,907,662
Number of contigs47
Contig N50422,667
Contig L504
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)47

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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
unplaced5,907,662475,907,662422,66700

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Agrobacterium tumefaciensAgrobacterium tumefaciens

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_009649785.1Agrobacterium tumefacienssyntype

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_009649785.1Agrobacterium tumefacienssyntype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type98.4583.8587.33
Best-match type98.4583.8587.33

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna