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ASM284001v1

Organism name:
Gammaproteobacteria bacterium HGW-Gammaproteobacteria-2 (g-proteobacteria)
Taxonomy check:
Inconclusive
Isolate:
HGW-Gammaproteobacteria-2
BioSample:
SAMN06767717
BioProject:
PRJNA321556
Submitter:
UC Berkeley
Date:
2017/12/13
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Excluded from RefSeq:
  • derived from metagenome
  • genus undefined
GenBank assembly accession:
GCA_002840015.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
PGZE01
Assembly method:
IDBA-UD v. 03.2016
Expected final version:
yes
Genome coverage:
10x
Sequencing technology:
Illumina HiSeq

IDs: 1490381 [UID] 5779058 [GenBank]

See Genome Information for Gammaproteobacteria bacterium HGW-Gammaproteobacteria-2

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::11/21/2017 11:14:36
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::4.3
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::3,067
CDS (total)::3,022
Genes (coding)::2,883
CDS (coding)::2,883
Genes (RNA)::45
rRNAs::
complete rRNAs::
partial rRNAs::
tRNAs::40
ncRNAs::5
Pseudo Genes (total)::139
Pseudo Genes (ambiguous residues)::4 of 139
Pseudo Genes (frameshifted)::98 of 139
Pseudo Genes (incomplete)::38 of 139
Pseudo Genes (internal stop)::5 of 139
Pseudo Genes (multiple problems)::6 of 139
CRISPR Arrays::2
##Genome-Annotation-Data-END##

Global statistics

Total sequence length3,311,024
Total ungapped length3,309,537
Gaps between scaffolds0
Number of scaffolds110
Scaffold N5064,474
Scaffold L5018
Number of contigs130
Contig N5053,194
Contig L5021
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)110

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
unplaced3,311,0241103,309,53764,474200

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Gammaproteobacteria bacterium HGW-Gammaproteobacteria-2Gammaproteobacteria bacterium HGW-Gammaproteobacteria-2

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_003586305.1Lysobacter tabacisolitype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type81.071.641.74

ANI result

Taxonomy check statusBest match statusComment
Inconclusivelow-coveragena