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ASM180191v1

Organism name:
Gammaproteobacteria bacterium RIFCSPLOWO2_12_FULL_42_18 (g-proteobacteria)
Taxonomy check:
Inconclusive
BioSample:
SAMN04315874
BioProject:
PRJNA288027
Submitter:
Banfield Lab, University of California, Berkeley
Date:
2016/10/20
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Excluded from RefSeq:
  • derived from metagenome
  • genus undefined
GenBank assembly accession:
GCA_001801915.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
MGYW01
Assembly method:
IDBA_UD v. 06.01.2014s
Genome coverage:
10x
Sequencing technology:
Illumina HiSeq2000

IDs: 833871 [UID] 3558418 [GenBank]

See Genome Information for Gammaproteobacteria bacterium RIFCSPLOWO2_12_FULL_42_18

Pathogen Detection Resources

History (Show revision history)

Comment

Annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI
Annotation Date::09/08/2016 13:46:42
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::3.3
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::1,767
CDS (total)::1,723
Genes (coding)::1,697
CDS (coding)::1,697
Genes (RNA)::44
rRNAs::1, 1 (5S, 23S)
complete rRNAs::1 (5S)
partial rRNAs::1 (23S)
tRNAs::39
ncRNAs::3
Pseudo Genes (total)::26
Pseudo Genes (ambiguous residues)::1 of 26
Pseudo Genes (frameshifted)::4 of 26
Pseudo Genes (incomplete)::18 of 26
Pseudo Genes (internal stop)::5 of 26
Pseudo Genes (multiple problems)::2 of 26
##Genome-Annotation-Data-END##

Global statistics

Total sequence length1,856,668
Total ungapped length1,856,567
Gaps between scaffolds0
Number of scaffolds22
Scaffold N50109,052
Scaffold L504
Number of contigs28
Contig N50109,052
Contig L506
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)22

Supplemental Content

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Assembly Information

Related Information

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
unplaced1,856,668221,856,567109,05260

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Gammaproteobacteria bacterium RIFCSPLOWO2_12_FULL_42_18Gammaproteobacteria bacterium RIFCSPLOWO2_12_FULL_42_18

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_900699155.1Acinetobacter lwoffiitype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type83.520.050.02

ANI result

Taxonomy check statusBest match statusComment
Inconclusivelow-coveragena