U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Download Assembly



ASM47904v1

Organism name:
Cetobacterium somerae ATCC BAA-474 (fusobacteria)
Taxonomy check:
OK
Infraspecific name:
Culture-collection: ATCC:BAA-474
Infraspecific name:
Strain: ATCC BAA-474
BioSample:
SAMN02436737
BioProject:
PRJNA210739
Submitter:
Washington University
Date:
2013/10/23
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Relation to type material:
assembly from type material
GenBank assembly accession:
GCA_000479045.1 (latest)
RefSeq assembly accession:
GCF_000479045.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
AXZF01
Assembly method:
Velvet v. 1.1.06
Genome coverage:
130x
Sequencing technology:
Illumina

IDs: 69951 [UID] 822728 [GenBank] 828068 [RefSeq]

See Genome Information for Cetobacterium somerae

There are 12 assemblies for this organism

See more

History (Show revision history)

Comment

The sequenced strain was obtained directly from ATCC. Source DNA was prepared by Michelle Daigneault, Kaitlyn Oliphant and Emma Allen-Vercoe (Department of Molecular and Cellular Biology, University of Guelph,Ontario, Canada), and was funded by the NHGRI (through an HMP ... Technology Development Grant - 1R21HG005811 -01).

Coding sequences were predicted using GeneMark and Glimmer3. Intergenic regions not spanned by GeneMark and Glimmer3 were blasted against NCBI's non-redundant (NR) database and predictions generated based on protein alignments. tRNA genes were determined using tRNAscan-SE and non-coding RNA genes by RNAmmer and Rfam. The final gene set is processed through several programs such as Kegg, psortB and Interproscan to determine possible function. Gene product names are determined by BER. Gene names are generated at the contig level and may not necessarily reflect any known order or orientation between contigs.

This is a reference genome for the Human Microbiome Project. This project is co-owned with the Human Microbiome Project DACC.

This work was funded by the National Human Genome Research Institute (NHGRI)/National Institutes of Health (NIH) grant 5U54HG00496804 for characterization of this genome.  more

Global statistics

Total sequence length3,068,248
Total ungapped length3,064,648
Gaps between scaffolds0
Number of scaffolds174
Scaffold N5047,157
Scaffold L5019
Number of contigs210
Contig N5045,972
Contig L5020
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)210

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
unplaced3,068,2481743,064,64847,157360

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Cetobacterium somerae ATCC BAA-474Cetobacterium somerae

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000220825.1Fusobacterium animalissuspected-type

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type84.130.450.61

ANI result

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