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ASM61988v1

Organism name:
Balneatrix alpica DSM 16621 (g-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: DSM 16621
BioSample:
SAMN02769643
BioProject:
PRJNA221005
Submitter:
DOE Joint Genome Institute
Date:
2014/04/08
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
RefSeq category:
representative genome
Relation to type material:
assembly from type material
GenBank assembly accession:
GCA_000619885.1 (latest)
RefSeq assembly accession:
GCF_000619885.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JHUZ01
Assembly method:
vpAllpaths v. r46652
Genome coverage:
Unknown
Sequencing technology:
Illumina HiSeq 2000

IDs: 140971 [UID] 992218 [GenBank] 1116868 [RefSeq]

See Genome Information for Balneatrix alpica

There are 3 assemblies for this organism

See more

History (Show revision history)

Comment

URL -- http://www.jgi.doe.gov
JGI Project ID: 1011016
Source DNA and organism available from Hans-Peter Klenk at the German Collection of Microorganisms and Cell Cultures (DSMZ) (hans-peter.klenk@dsmz.de)
Contacts: Nikos Kyrpides (nckyrpides@lbl.gov)
 Tanja Woyke (microbe@cuba.jgi-psf.org)
Whole genome sequencing and draft assembly at JGI
Annotation by JGI
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)
Full annotations are available from IMG  more

MIGS-Data

##MIGS-Data-START##
assembly::vpAllpaths v. r46652
collection_date::1987
country::France
environment::Host; Human
investigation_type::bacteria_archaea
isol_growth_condt::8327781
project_name::Balneatrix alpica DSM 16621
sequencing_meth::WGS
ref_biomaterial::DSM 16621
rel_to_oxygen::Aerobe
finishing_strategy::Level 1: Standard Draft
GOLD Stamp ID::Gi11200
Type Strain::Yes
Funding Program::DOE-CSP 2012
Gene Calling Method::Prodigal 2.5
Isolation Site::Cerebrospinal fluid
Host Name::Homo sapiens
Cell Shape::Rod-shaped
Motility::Motile
Temperature Range::Mesophile
Gram Staining::Gram-
Phenotypes::Opportunistic Pathogen
##MIGS-Data-END##

Global statistics

Total sequence length3,653,918
Total ungapped length3,650,474
Gaps between scaffolds0
Number of scaffolds14
Scaffold N50561,094
Scaffold L503
Number of contigs17
Contig N50556,771
Contig L503
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)17

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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
unplaced3,653,918143,650,474561,09430

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Balneatrix alpica DSM 16621Balneatrix alpica

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_028747405.1Pseudomonas chlororaphissuspected-type

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type86.110.190.11

ANI result

Taxonomy check statusBest match statusComment
OKlow-coverageAssembly is the type-strain, no match is expected