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ASM20514v2

Organism name:
Leptospirillum rubarum (bacteria)
Taxonomy check:
Inconclusive
BioSample:
SAMN02954271
BioProject:
PRJNA18537
Submitter:
DOE Joint Genome Institute
Date:
2007/02/06
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Excluded from RefSeq:
  • derived from metagenome
  • incomplete metagenome
GenBank assembly accession:
GCA_000205145.2 (latest)
RefSeq assembly accession:
GCF_000205145.1 (suppressed)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
AAWO01

IDs: 428708 [UID] 428708 [GenBank] 40626058 [RefSeq]

See Genome Information for Leptospirillum rubarum

History (Show revision history)

Comment

URL -- http://www.jgi.doe.gov
jgi Project ID: 4001343
Source DNA available from Jillian F. Banfield (jbanfield@berkeley.edu)
Contacts: Jillian F. Banfield (jbanfield@berkeley.edu)
 Paul Richardson (microbes@cuba.jgi-psf.org)
Whole genome sequencing at JGI-PGF
This first version of the project has a partial genome of one Leptospirillum group II species ... that dominates a biofilm collected from the UBA location of the Richmond Mine acid mine drainage site, Iron Mountain, near Redding CA. The contigs were assembled in a single genomic path, thus strain variation is not evident. Annotation is on the scaffolds. Manual assembly by J. Banfield. Manual curation of ORFs by D. Goltsman and V. Denef.  more

Global statistics

Total sequence length2,636,861
Total ungapped length2,632,898
Gaps between scaffolds0
Number of scaffolds8
Scaffold N50405,847
Scaffold L503
Number of contigs87
Contig N5066,410
Contig L5011
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)87

Supplemental Content

PubMed articles for this assembly

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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
unplaced2,636,86182,632,898405,847790

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Leptospirillum rubarumLeptospirillum rubarum

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000755505.1Leptospirillum ferriphilumsuspected-type

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type92.4277.7185.05

ANI result

Taxonomy check statusBest match statusComment
Inconclusivebelow-threshold-mismatchna
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