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ASM15905v1

Organism name:
Clostridium sp. M62/1
Infraspecific name:
Strain: M62/1
BioSample:
SAMN02415619
Submitter:
Washington University Genome Sequencing Center
Date:
2010/01/08
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_000159055.1 (latest)
RefSeq assembly accession:
GCF_000159055.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
ACFX02

IDs: 188898 [UID] 188878 [GenBank] 188898 [RefSeq]

See Genome Information for Clostridium sp. M62/1

History (Show revision history)

Comment

Clostridium sp. M62/1 (GenBank Accession Number for 16S rDNA gene: AY305309) is a member of the division Firmicutes. In one comprehensive 16S rDNA sequence-based enumeration of the colonic microbiota of three healthy adult humans, it is found in an ... unknown clostridial cluster XIVa (C. saccharolyticum-related) among all 16S rDNA sequences (Eckburg et. al. (2005)). It represents, on average, 0.068% of all 16S rDNA sequences and 0.133% of the sequences in its division (Eckburg et. al. (2005)). The sequenced strain was obtained from the laboratory of Prof. Harry Flint, Rowett Research Institute, Aberdeen, Scotland, UK (H.Flint@rowett.ac.uk).

We have performed one round of automated sequence improvement (pre-finishing), along with manual improvement that includes breaking apart any mis-assembly, and making manual joins where possible. Manual edits also are made where the consensus appears to be incorrect. All low quality data on the ends of contigs is removed. Contigs are ordered and oriented where possible.

Coding sequences were predicted using GeneMark v3.3 and Glimmer2 v2.13. Intergenic regions not spanned by GeneMark and Glimmer2 were blasted against NCBI's non-redundant (NR) database and predictions generated based on protein alignments. tRNA genes were determined using tRNAscan-SE 1.23 and non-coding RNA genes by RNAmmer-1.2 and Rfam v8.0. Gene names are generated at the contig level and may not necessarily reflect any known order or orientation between contigs. 

This work was supported by the National Human Genome Research Institute and the NIH Roadmap Human Microbiome Project [http://nihroadmap.nih.gov/hmp/].

This is a reference genome for the Human Microbiome Project. This project is co-owned with the Human Microbiome Project DACC.
Product names were updated in August 2012. 
Genome Coverage: 28.5x 
Sequencing Technology: 454

Annotation was added to the contigs in March 2010.  more

Global statistics

Total sequence length3,842,594
Total assembly gap length5,900
Gaps between scaffolds0
Number of scaffolds26
Scaffold N50463,016
Scaffold L503
Number of contigs85
Contig N50170,015
Contig L506
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
unplaced3,842,594263,836,694463,016590