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ASM177210v1

  • Anomalous assembly.
Organism name:
Burkholderiales bacterium RIFCSPHIGHO2_12_63_9 (b-proteobacteria)
Taxonomy check:
Inconclusive
BioSample:
SAMN04314076
BioProject:
PRJNA288027
Submitter:
Banfield Lab, University of California, Berkeley
Date:
2016/10/18
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Assembly anomaly:
contaminated
Excluded from RefSeq:
  • contaminated
  • derived from metagenome
  • fragmented assembly
  • genus undefined
GenBank assembly accession:
GCA_001772105.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
MERY01
Assembly method:
IDBA_UD v. 06.01.2014s
Genome coverage:
10x
Sequencing technology:
Illumina HiSeq2000

IDs: 818951 [UID] 3528098 [GenBank]

See Genome Information for Burkholderiales bacterium RIFCSPHIGHO2_12_63_9

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 19:41:37
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)::1,473
CDS (total)::1,453
Genes (coding)::1,016
CDS (coding)::1,016
Genes (RNA)::20
rRNAs::
complete rRNAs::
partial rRNAs::
tRNAs::20
ncRNAs::0
Pseudo Genes (total)::437
Pseudo Genes (ambiguous residues)::55 of 437
Pseudo Genes (frameshifted)::6 of 437
Pseudo Genes (incomplete)::390 of 437
Pseudo Genes (internal stop)::4 of 437
Pseudo Genes (multiple problems)::17 of 437
##Genome-Annotation-Data-END##

Global statistics

Total sequence length1,282,659
Total ungapped length1,277,277
Gaps between scaffolds0
Number of scaffolds400
Scaffold N504,291
Scaffold L5090
Number of contigs496
Contig N503,926
Contig L5099
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)400

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
unplaced1,282,6594001,277,2774,291960

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Burkholderiales bacterium RIFCSPHIGHO2_12_63_9Burkholderiales bacterium RIFCSPHIGHO2_12_63_9

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_003604195.1Simplicispira lacusdianitype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type88.1249.3016.97

ANI result

Taxonomy check statusBest match statusComment
Inconclusivebelow-threshold-lineage-matchna