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ASM40257v1

Organism name:
Caldiserica bacterium JGI 0000059-M03 (bacteria)
Taxonomy check:
Inconclusive
Infraspecific name:
Strain: JGI 0000059-M03
BioSample:
SAMN02440395
BioProject:
PRJNA192323
Submitter:
DOE Joint Genome Institute
Date:
2013/05/29
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
Excluded from RefSeq:
  • derived from single cell
  • genus undefined
GenBank assembly accession:
GCA_000402575.1 (latest)
RefSeq assembly accession:
GCF_000402575.1 (suppressed)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
AQSQ01
Assembly method:
Velvet v. 1.1.04; ALLPATHS v. R37654
Single-cell amplification:
MDA
Genome coverage:
Unknown
Sequencing technology:
Illumina HiSeq 2000

IDs: 712528 [UID] 694028 [GenBank] 712528 [RefSeq]

See Genome Information for Caldiserica bacterium JGI 0000059-M03

History (Show revision history)

Comment

URL -- http://www.jgi.doe.gov
JGI Project ID: 408107
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: Tanja Woyke (twoyke@lbl.gov)
 Tanja Woyke (microbe@cuba.jgi-psf.org)
Whole genome sequencing and draft assembly at JGI-PGF
Annotation by JGI-PGF ... and 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::Caldiserica bacterium JGI 0000059-M03
collection_date::Missing
lat_lon::Missing
depth::Missing
alt_elev::Missing
country::USA
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
Type Strain::No
Funding Program::DOE-DD 2011
Gene Calling Method::Prodigal
Isolation Site::TA reactor_biofilm
Source of Isolate::wastewater
Isolation Comments::Single Cell
##MIGS-Data-END##

Global statistics

Total sequence length503,801
Total ungapped length503,801
Number of contigs30
Contig N5024,190
Contig L509
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)30

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
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
Contig
Count
Ungapped
Length
Contig
N50
Spanned
Gaps
Unspanned
Gaps
unplaced503,80130503,80124,19000

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Caldiserica bacterium JGI 0000059-M03Caldiserica bacterium JGI 0000059-M03

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_900095705.1Fusobacterium massiliensetype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type79.910.140.04

ANI result

Taxonomy check statusBest match statusComment
Inconclusivelow-coveragena