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ASM37832v1

Organism name:
Thioalkalivibrio sp. ALJ2 (g-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: ALJ2
BioSample:
SAMN02440992
BioProject:
PRJNA181384
Submitter:
DOE Joint Genome Institute
Date:
2013/04/23
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_000378325.1 (latest)
RefSeq assembly accession:
GCF_000378325.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
ARKB01
Assembly method:
Velvet v. 1.1.04; ALLPATHS v. R37654
Genome coverage:
Unknown
Sequencing technology:
Illumina HiSeq 2000

IDs: 638958 [UID] 604798 [GenBank] 638958 [RefSeq]

See Genome Information for Thioalkalivibrio sp. ALJ2

History (Show revision history)

Comment

URL -- http://www.jgi.doe.gov
JGI Project ID: 408658
Source DNA and Organism available from Gerard Muyzer (g.muijzer@uva.nl)
Source DNA available from Gerard Muyzer (g.muijzer@uva.nl)
Organism available from Gerard Muyzer (g.muijzer@uva.nl)
Contacts: Gerard Muyzer (g.muijzer@uva.nl)
 Tanja Woyke (microbe@cuba.jgi-psf.org)
Whole genome sequencing and draft assembly at JGI-PGF
Annotation by ... JGI-ORNL
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##
investigation_type::bacteria_archaea
project_name::Thioalkalivibrio sp. ALJ2
collection_date::Missing
lat_lon::Missing
depth::Missing
alt_elev::Missing
country::Missing
num_replicons::Missing
ref_biomaterial::Missing
biotic_relationship::Missing
rel_to_oxygen::Missing
isol_growth_condt::Missing
assembly::Velvet v. 1.1.04; ALLPATHS v. R37654
finishing_strategy::Missing
environment::Missing
trophic_level::Missing
sequencing_meth::WGS
GOLD Stamp ID::Gi18304
Gram Staining::Gram-
##MIGS-Data-END##

Global statistics

Total sequence length2,881,727
Total ungapped length2,881,096
Gaps between scaffolds0
Number of scaffolds12
Scaffold N50425,729
Scaffold L502
Number of contigs14
Contig N50425,729
Contig L502
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)14

Supplemental Content

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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
unplaced2,881,727122,881,096425,72920

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Thioalkalivibrio sp. ALJ2Thioalkalivibrio sp. ALJ2

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000385215.1Thioalkalivibrio thiocyanoxidanstype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type90.8181.4584.86

ANI result

Taxonomy check statusBest match statusComment
OKgenus-matchna