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ASM177062v1

Organism name:
Betaproteobacteria bacterium RIFCSPLOWO2_12_FULL_67_28 (b-proteobacteria)
Taxonomy check:
Inconclusive
BioSample:
SAMN04315765
BioProject:
PRJNA288027
Submitter:
Banfield Lab, University of California, Berkeley
Date:
2016/10/18
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Excluded from RefSeq:
  • derived from metagenome
  • genus undefined
GenBank assembly accession:
GCA_001770625.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
MERO01
Assembly method:
IDBA_UD v. 06.01.2014s
Genome coverage:
10x
Sequencing technology:
Illumina HiSeq2000

IDs: 818221 [UID] 3526638 [GenBank]

See Genome Information for Betaproteobacteria bacterium RIFCSPLOWO2_12_FULL_67_28

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::09/06/2016 19:43:01
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)::3,746
CDS (total)::3,704
Genes (coding)::3,479
CDS (coding)::3,479
Genes (RNA)::42
rRNAs::1, 1, 1 (5S, 16S, 23S)
complete rRNAs::1 (5S)
partial rRNAs::1, 1 (16S, 23S)
tRNAs::36
ncRNAs::3
Pseudo Genes (total)::225
Pseudo Genes (ambiguous residues)::37 of 225
Pseudo Genes (frameshifted)::19 of 225
Pseudo Genes (incomplete)::187 of 225
Pseudo Genes (internal stop)::5 of 225
Pseudo Genes (multiple problems)::18 of 225
##Genome-Annotation-Data-END##

Global statistics

Total sequence length3,668,585
Total ungapped length3,665,695
Gaps between scaffolds0
Number of scaffolds248
Scaffold N5017,867
Scaffold L5063
Number of contigs316
Contig N5017,456
Contig L5067
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)248

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
unplaced3,668,5852483,665,69517,867680

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Betaproteobacteria bacterium RIFCSPLOWO2_12_FULL_67_28Betaproteobacteria bacterium RIFCSPLOWO2_12_FULL_67_28

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_023721795.1Zeimonas sediministype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type79.872.562.43

ANI result

Taxonomy check statusBest match statusComment
Inconclusivelow-coveragena