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ASM16417v1

Organism name:
Peptoclostridium difficile NAP08 (firmicutes)
Infraspecific name:
Strain: NAP08
BioSample:
SAMN00001466
Submitter:
BCM
Date:
2010/05/21
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_000164175.1 (latest)
RefSeq assembly accession:
GCF_000164175.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
ADNX01
Assembly method:
Newbler Assembler v. 2.0-01162009
Genome coverage:
30.4x
Sequencing technology:
454

IDs: 199058 [UID] 199038 [GenBank] 199058 [RefSeq]

See Genome Information for Clostridioides difficile

There are 640 assemblies for this organism

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History (Show revision history)

Comment

Clostridium difficile NAP08

 Strain source, body site: gastrointestinal tract

 Inquiries should be directed to microbe@hgsc.bcm.tmc.edu

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

 This sequence is generated ... as a part of the Human Microbiome Project (HMP), funded by the National Institutes of Health (NIH), National Human Genome Research Institute (NHGRI) Large-Scale Sequencing Research Network and the National Institute of Allergy and Infectious Diseases (NIAID) Microbial Genome Sequencing Centers Program. The mission of the HMP is to generate resources to enable the characterization of the human microbiota, the microbial communities living within human bodies, and analyze the role of these organisms in human health and disease. See http://www.hmpdacc.org/ for more information.

 The sequenced strain was obtained from University of Arizona (Department of Veterinary Science and Microbiology, 1117 E. Lowell Street, Bldg 90 Room 218, Tuscon, AZ, 85721). The genomic DNA was prepared from a single bacterial isolate. The sequence generated included at least 10 fold coverage of Roche/454 Lifesciences FLX fragment data and at least 8 fold clone coverage of Roche/454 Lifesciences paired-end data. The Roche/454 Lifesciences sequence was assembled using the Roche/454 Lifescience Newbler assembler. The contigs from the Newbler assembly were aligned with mapping tools such as Mosaic and Crossmatch and these data were used for error correction for this version of the draft assembly. This draft assembly meets the HMP draft quality standards (more than 90% of the genome is included in contigs, more than 90% of a core set of bacterial genes are found with > 30% identity and > 30% length; more than 90% of the bases in the assembly have more than 5 fold sequence coverage, the contig N50 length is greater than 5kb, the scaffold N50 length is greater than 20kb, and there is less than 1 gap per 5kb).  more

Global statistics

Total sequence length4,078,686
Total assembly gap length57,070
Gaps between scaffolds0
Number of scaffolds24
Scaffold N50744,486
Scaffold L503
Number of contigs110
Contig N5084,874
Contig L5017
Total number of chromosomes and plasmids0

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Global assembly definition

Download the full sequence report
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
unplaced4,078,686244,021,616744,486860