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ASM1331796v2

Organism name:
Agrobacterium tumefaciens (Agrobacterium genomosp. 1)
Taxonomy check:
OK
Infraspecific name:
Strain: H25/79
BioSample:
SAMN14165523
BioProject:
PRJNA607555
Submitter:
Oregon State University
Date:
2023/06/01
Assembly type:
na
Assembly level:
Complete Genome
Genome representation:
full
GenBank assembly accession:
GCA_013317965.2 (latest)
RefSeq assembly accession:
GCF_013317965.2 (latest)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
Unicycler v. v0.4.9b
Expected final version:
yes
Genome coverage:
317.2x
Sequencing technology:
Illumina; Oxford Nanopore MinION

IDs: 16719921 [UID] 42995878 [GenBank] 43117608 [RefSeq]

See Genome Information for Agrobacterium tumefaciens

Pathogen Detection Resources

There are 259 assemblies for this organism

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History (Show revision history)

Comment

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI RefSeq
Annotation Date::01/05/2024 23:33:46
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)::5,544
CDSs (total)::5,468
Genes (coding)::5,394
CDSs (with protein)::5,394
Genes (RNA)::76
rRNAs::5, 5, 5 (5S, 16S, 23S)
complete rRNAs::5, 5, 5 (5S, 16S, 23S)
tRNAs::57
ncRNAs::4
Pseudo Genes (total)::74
CDSs (without protein)::74
Pseudo Genes (ambiguous residues)::0 of 74
Pseudo Genes (frameshifted)::36 of 74
Pseudo Genes (incomplete)::54 of 74
Pseudo Genes (internal stop)::13 of 74
Pseudo Genes (multiple problems)::24 of 74
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,872,552
Total ungapped length5,872,552
Total number of chromosomes and plasmids5

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Assembly Information

Related Information

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
Assembly Unit: Primary Assembly (GCF_013317985.2)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome CircularCP123847.1=NZ_CP123847.1
Chromosome LinearCP123848.1=NZ_CP123848.1
Plasmid pAtH25_79aCP123849.1=NZ_CP123849.1
Plasmid pAtH25_79bCP123850.1=NZ_CP123850.1
Plasmid pTiH25_79CP123851.1=NZ_CP123851.1

Assembly statistics

MoleculeTotal
Length
All5,872,552
Chromosome Circular2,795,364
Chromosome Linear2,069,801
Plasmid pAtH25_79a628,949
Plasmid pAtH25_79b200,862
Plasmid pTiH25_79177,576

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_011684035.1Agrobacterium tumefacienssuspected-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_011684035.1Agrobacterium tumefacienssuspected-type

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type98.4284.3683.86
Best-match type98.4284.3683.86

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna