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ASM352386v1

Organism name:
Gammaproteobacteria bacterium (g-proteobacteria)
Taxonomy check:
Inconclusive
Isolate:
UBA8321
BioSample:
SAMN08019079
BioProject:
PRJNA417962
Submitter:
University of Queensland
Date:
2018/09/07
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Excluded from RefSeq:
  • derived from metagenome
  • genus undefined
GenBank assembly accession:
GCA_003523865.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
DOFV01
Assembly method:
CLC de novo assembler v. 4.4.1
Expected final version:
yes
Genome coverage:
9.98x
Sequencing technology:
Illumina HiSeq 2000

IDs: 1952331 [UID] 7377148 [GenBank]

See Genome Information for Gammaproteobacteria bacterium

There are 5200 assemblies for this organism

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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::04/30/2018 11:00:09
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::4.5
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::2,723
CDS (total)::2,691
Genes (coding)::2,673
CDS (coding)::2,673
Genes (RNA)::32
rRNAs::1 (16S)
partial rRNAs::1 (16S)
tRNAs::29
ncRNAs::2
Pseudo Genes (total)::18
Pseudo Genes (ambiguous residues)::0 of 18
Pseudo Genes (frameshifted)::5 of 18
Pseudo Genes (incomplete)::11 of 18
Pseudo Genes (internal stop)::3 of 18
Pseudo Genes (multiple problems)::1 of 18
##Genome-Annotation-Data-END##

Global statistics

Total sequence length2,529,127
Total ungapped length2,472,390
Gaps between scaffolds0
Number of scaffolds323
Scaffold N509,786
Scaffold L5082
Number of contigs518
Contig N507,218
Contig L50104
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)323

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
unplaced2,529,1273232,472,3909,7861950

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Gammaproteobacteria bacteriumGammaproteobacteria bacterium

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_011067185.1Candidatus Afipia apatlaquensissuspected-type

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type98.920.850.38

ANI result

Taxonomy check statusBest match statusComment
Inconclusivelow-coveragena