U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Download Assembly



ASM1331747v1

Organism name:
Agrobacterium vitis (a-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: BM37/95
BioSample:
SAMN14165430
BioProject:
PRJNA607555
Submitter:
Oregon State University
Date:
2020/06/10
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_013317475.1 (latest)
RefSeq assembly accession:
GCF_013317475.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JAALYF01
Assembly method:
SPAdes v. 3.13.1
Expected final version:
yes
Genome coverage:
101x
Sequencing technology:
Illumina HiSeq

IDs: 7257791 [UID] 19998348 [GenBank] 20059618 [RefSeq]

See Genome Information for Agrobacterium vitis

There are 68 assemblies for this organism

See more

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::02/28/2020 15:09:43
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)::5,455
CDSs (total)::5,398
Genes (coding)::5,261
CDSs (with protein)::5,261
Genes (RNA)::57
rRNAs::1, 1, 2 (5S, 16S, 23S)
complete rRNAs::1, 1 (5S, 16S)
partial rRNAs::2 (23S)
tRNAs::49
ncRNAs::4
Pseudo Genes (total)::137
CDSs (without protein)::137
Pseudo Genes (ambiguous residues)::0 of 137
Pseudo Genes (frameshifted)::61 of 137
Pseudo Genes (incomplete)::87 of 137
Pseudo Genes (internal stop)::19 of 137
Pseudo Genes (multiple problems)::28 of 137
##Genome-Annotation-Data-END##

Global statistics

Total sequence length6,056,902
Total ungapped length6,056,049
Gaps between scaffolds0
Number of scaffolds65
Scaffold N50517,185
Scaffold L505
Number of contigs66
Contig N50517,185
Contig L505
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)65

Supplemental Content

PubMed articles for this assembly

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...

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
unplaced6,056,902656,056,049517,18510

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Agrobacterium vitisAgrobacterium vitis

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_001541345.2Agrobacterium vitistype

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_001541345.2Agrobacterium vitistype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type92.8276.4280.42
Best-match type92.8276.4280.42

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna