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ASM26246v1

Organism name:
Frankia sp. QA3 (high G+C Gram-positive bacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: QA3
BioSample:
SAMN02256510
BioProject:
PRJNA63325
Submitter:
DOE Joint Genome Institute
Date:
2012/06/19
Assembly type:
na
Assembly level:
Chromosome
Genome representation:
full
GenBank assembly accession:
GCA_000262465.1 (latest)
RefSeq assembly accession:
GCF_000262465.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
AJWA01
Assembly method:
Newbler v. 2.3
Genome coverage:
30x
Sequencing technology:
454: Illumina

IDs: 395238 [UID] 390408 [GenBank] 395238 [RefSeq]

See Genome Information for Frankia sp. QA3

History (Show revision history)

Comment

URL -- http://www.jgi.doe.gov
JGI Project ID: 4089567
Source DNA and organism available from Louis Tisa (LST@unh.edu)
Contacts: Louis Tisa (LST@unh.edu)
 Tanja Woyke (microbe@cuba.jgi-psf.org)
Annotation done by JGI-ORNL and JGI-PGF
Finishing done by JGI-LANL
The JGI and collaborators endorse the principles for the distribution and use ... of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. It is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis.
(http://www.genome.gov/page.cfm?pageID=10506376)  more

MIGS-Data

##MIGS-Data-START##
investigation_type::bacteria_archaea
project_name::Frankia sp. QA3
collection_date::Missing
lat_lon::Missing
depth::Missing
alt_elev::Missing
country::Missing
environment::Host, Plant symbiont, Soil
num_replicons::Missing
ref_biomaterial::Missing
biotic_relationship::Symbiotic
trophic_level::Chemoorganotroph
rel_to_oxygen::Aerobe
isol_growth_condt::Missing
sequencing_meth::WGS
assembly::Newbler v. 2.3 (pre-release)
finishing_strategy::Improved High-Quality Draft
GOLD Stamp ID::Gi07598
Funding Program::DOE-CSP 2010
Gene Calling Method::Prodigal 1.4, GenePRIMP
Cell Shape::Filament-shaped
Motility::Nonmotile
Sporulation::Sporulating
Temperature Range::Mesophile
Gram Staining::Gram+
Symbiotic Relationship::Mutualistic
Diseases::None
Phenotypes::Non-Pathogen
##MIGS-Data-END##

Global statistics

Total sequence length7,590,853
Total ungapped length7,578,953
Gaps between scaffolds0
Number of scaffolds1
Scaffold N507,590,853
Scaffold L501
Number of contigs120
Contig N50130,116
Contig L5017
Total number of chromosomes and plasmids1
Number of component sequences (WGS or clone)120

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
Assembly Unit: Primary Assembly (GCF_000262475.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome CM001489.1=NZ_CM001489.1

Assembly statistics

MoleculeTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
Chromosome 7,590,85317,578,9537,590,8531190

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Frankia sp. QA3Frankia sp. QA3

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000948395.1Frankia torreyitype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type91.5766.8366.52

ANI result

Taxonomy check statusBest match statusComment
OKgenus-matchna