U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Download Assembly



Trep_dent_F0402_V1

Organism name:
Treponema denticola F0402 (spirochetes)
Taxonomy check:
OK
Infraspecific name:
Strain: F0402
BioSample:
SAMN02463845
BioProject:
PRJNA42551
Submitter:
Broad Institute
Date:
2011/03/14
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_000191825.1 (latest)
RefSeq assembly accession:
GCF_000191825.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
ADEC01
Assembly method:
Newbler v. 2.1-PreRelease-4/28/2009
Genome coverage:
20x
Sequencing technology:
454

IDs: 459148 [UID] 249598 [GenBank] 459148 [RefSeq]

See Genome Information for Treponema denticola

There are 40 assemblies for this organism

See more

History (Show revision history)

Comment

This is a reference genome for the Human Microbiome Project. This project is co-owned with the Human Microbiome Project DACC.
Source DNA provided by Jacques Izard, Akila Ganesan, Oxana V. Baranova, Jessica M. Blanton, Bruce J. Paster, Sigmund S. Socransky ... and Floyd E. Dewhirst. (Molecular Genetics, The Forsyth Institute, Boston, MA 02115, USA).
Bacteria provided by Jacques Izard, Akila Ganesan, Oxana V. Baranova, Jessica M. Blanton, Bruce J. Paster, Sigmund S. Socransky and Floyd E. Dewhirst. (Molecular Genetics, The Forsyth Institute, Boston, MA 02115, USA). 
Please be aware that the annotation is done automatically with little or no manual curation.  more

Global statistics

Total sequence length2,742,634
Total ungapped length2,734,980
Gaps between scaffolds0
Number of scaffolds12
Scaffold N501,411,708
Scaffold L501
Number of contigs31
Contig N50285,743
Contig L503
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)31

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
unplaced2,742,634122,734,9801,411,708190

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Treponema denticola F0402Treponema denticola

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_000008185.1Treponema denticola ATCC 35405type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000008185.1Treponema denticolatype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type97.5087.9784.62
Best-match type97.5087.9784.62

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna