U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Download Assembly



ASM70214v1

Organism name:
Lachnospiraceae bacterium FD2005 (firmicutes)
Taxonomy check:
Inconclusive
Infraspecific name:
Strain: FD2005
BioSample:
SAMN02841196
BioProject:
PRJNA223476
Submitter:
DOE Joint Genome Institute
Date:
2014/06/11
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Excluded from RefSeq:
  • genus undefined
GenBank assembly accession:
GCA_000702145.1 (latest)
RefSeq assembly accession:
GCF_000702145.1 (suppressed)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JNKT01
Assembly method:
vpAllpaths v. r46652
Genome coverage:
Unknown
Sequencing technology:
Illumina HiSeq 2000

IDs: 184241 [UID] 1109158 [GenBank] 1185338 [RefSeq]

See Genome Information for Lachnospiraceae bacterium FD2005

History (Show revision history)

Comment

URL -- http://www.jgi.doe.gov
JGI Project ID: 1025960
Source DNA and Organism available from William Kelly (bill.kelly@agresearch.co.nz)
Source DNA available from William Kelly (bill.kelly@agresearch.co.nz)
Organism available from William Kelly (bill.kelly@agresearch.co.nz)
Contacts: William Kelly (bill.kelly@agresearch.co.nz)
 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##
assembly::vpAllpaths v. r46652
investigation_type::bacteria_archaea
project_name::Lachnospiraceae bacterium FD2005
sequencing_meth::WGS
GOLD Stamp ID::Gi0054471
Gene Calling Method::Prodigal 2.5
##MIGS-Data-END##

Global statistics

Total sequence length2,440,715
Total ungapped length2,439,210
Gaps between scaffolds0
Number of scaffolds9
Scaffold N50540,372
Scaffold L502
Number of contigs12
Contig N50287,566
Contig L503
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)12

Supplemental Content

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
unplaced2,440,71592,439,210540,37230

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Lachnospiraceae bacterium FD2005Lachnospiraceae bacterium FD2005

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_028539255.1Agathobacter ruministype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type88.331.000.84

ANI result

Taxonomy check statusBest match statusComment
Inconclusivelow-coveragena