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ASM990685v1

Organism name:
Xylophilus rhododendri (b-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Culture-collection: KACC:21265
Infraspecific name:
Strain: KACC 21265
BioSample:
SAMN13783577
BioProject:
PRJNA600143
Submitter:
National Institute of Agricultural Sciences
Date:
2020/01/20
Assembly type:
na
Assembly level:
Complete Genome
Genome representation:
full
RefSeq category:
representative genome
Relation to type material:
assembly from type material
GenBank assembly accession:
GCA_009906855.1 (latest)
RefSeq assembly accession:
GCF_009906855.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
RS HGAP Assembly v. 3.0
Expected final version:
yes
Genome coverage:
143.0x
Sequencing technology:
PacBio RSII

IDs: 5477791 [UID] 15861848 [GenBank] 15925778 [RefSeq]

See Genome Information for Xylophilus rhododendri

History (Show revision history)

Comment

Bacteria and source DNA available from KACC
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::01/22/2024 02:37:10
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)::5,486
CDSs (total)::5,421
Genes (coding)::5,316
CDSs (with protein)::5,316
Genes (RNA)::65
rRNAs::3, 3, 3 (5S, 16S, 23S)
complete rRNAs::3, 3, 3 (5S, 16S, 23S)
tRNAs::52
ncRNAs::4
Pseudo Genes (total)::105
CDSs (without protein)::105
Pseudo Genes (ambiguous residues)::0 of 105
Pseudo Genes (frameshifted)::81 of 105
Pseudo Genes (incomplete)::27 of 105
Pseudo Genes (internal stop)::0 of 105
Pseudo Genes (multiple problems)::3 of 105
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,873,400
Total ungapped length5,873,400
Total number of chromosomes and plasmids2

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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_009906865.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome CP047650.1=NZ_CP047650.1
Plasmid unnamed1CP047651.1=NZ_CP047651.1

Assembly statistics

MoleculeTotal
Length
All5,873,400
Chromosome 5,854,580
Plasmid unnamed118,820

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Xylophilus rhododendriXylophilus rhododendri

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_024832295.1Xylophilus ampelinustype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type83.5519.0429.93

ANI result

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