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ASM420975v1

Organism name:
Pseudoduganella lutea (b-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Culture-collection: DSM:17473
Infraspecific name:
Strain: DSM 17473
BioSample:
SAMN10873118
BioProject:
PRJNA520998
Submitter:
University of Tuebingen
Date:
2019/02/19
Assembly type:
na
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
Relation to type material:
assembly from type material
GenBank assembly accession:
GCA_004209755.1 (latest)
RefSeq assembly accession:
GCF_004209755.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
HGAP v. 3.0
Expected final version:
yes
Genome coverage:
107.0x
Sequencing technology:
PacBio RSII

IDs: 2277771 [UID] 8546138 [GenBank] 8571598 [RefSeq]

See Genome Information for Pseudoduganella lutea

History (Show revision history)

Comment

Genome not circularized
The annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about PGAP can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI RefSeq
Annotation Date::08/27/2023 16:55:53
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::6.6
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA
Genes (total)::6,382
CDSs (total)::6,265
Genes (coding)::6,172
CDSs (with protein)::6,172
Genes (RNA)::117
rRNAs::9, 8, 8 (5S, 16S, 23S)
complete rRNAs::9, 8, 8 (5S, 16S, 23S)
tRNAs::88
ncRNAs::4
Pseudo Genes (total)::93
CDSs (without protein)::93
Pseudo Genes (ambiguous residues)::0 of 93
Pseudo Genes (frameshifted)::56 of 93
Pseudo Genes (incomplete)::46 of 93
Pseudo Genes (internal stop)::14 of 93
Pseudo Genes (multiple problems)::19 of 93
##Genome-Annotation-Data-END##

Global statistics

Total sequence length7,504,949
Total ungapped length7,504,849
Gaps between scaffolds0
Number of scaffolds1
Scaffold N507,504,949
Scaffold L501
Number of contigs1
Contig N507,504,849
Contig L501
Total number of chromosomes and plasmids1
Number of component sequences (WGS or clone)1

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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
Assembly Unit: Primary Assembly (GCF_004209765.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome CP035913.1=NZ_CP035913.1

Assembly statistics

MoleculeTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
Chromosome 7,504,94917,504,8497,504,94910

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Pseudoduganella luteaPseudoduganella lutea

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_004322755.1Pseudoduganella albidiflavatype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type88.2167.5968.20

ANI result

Taxonomy check statusBest match statusComment
OKbelow-threshold-mismatchAssembly is the type-strain, mismatch is within genus and expected