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ASM155873v2

Organism name:
Pantoea vagans (enterobacteria)
Taxonomy check:
OK
Infraspecific name:
Culture-collection: FDA:FDAARGOS_160
Infraspecific name:
Strain: FDAARGOS_160
BioSample:
SAMN03996307
BioProject:
PRJNA231221
Submitter:
University of Maryland School of Medicine Institute for Genome Sciences (IGS) - sequencing center
Date:
2018/02/16
Assembly type:
na
Assembly level:
Complete Genome
Genome representation:
full
GenBank assembly accession:
GCA_001558735.2 (latest)
RefSeq assembly accession:
GCF_001558735.2 (latest)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
HGAP3 v. Oct 2014
Genome coverage:
406.902x
Sequencing technology:
PacBio; Illumina

IDs: 1616371 [UID] 6170008 [GenBank] 6205828 [RefSeq]

See Genome Information for Pantoea vagans

Pathogen Detection Resources

There are 33 assemblies for this organism

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History (Show revision history)

Comment

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::03/05/2024 04:37:57
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)::4,584
CDSs (total)::4,477
Genes (coding)::4,330
CDSs (with protein)::4,330
Genes (RNA)::107
rRNAs::8, 7, 7 (5S, 16S, 23S)
complete rRNAs::8, 7, 7 (5S, 16S, 23S)
tRNAs::76
ncRNAs::9
Pseudo Genes (total)::147
CDSs (without protein)::147
Pseudo Genes (ambiguous residues)::0 of 147
Pseudo Genes (frameshifted)::77 of 147
Pseudo Genes (incomplete)::64 of 147
Pseudo Genes (internal stop)::54 of 147
Pseudo Genes (multiple problems)::43 of 147
Pseudo Genes (short protein)::1 of 147
##Genome-Annotation-Data-END##

Global statistics

Total sequence length4,808,855
Total ungapped length4,808,855
Total number of chromosomes and plasmids4

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Assembly Information

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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_001558745.2)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome CP014129.2=NZ_CP014129.2
Plasmid unnamed1CP014126.2=NZ_CP014126.2
Plasmid unnamed2CP014127.2=NZ_CP014127.2
Plasmid unnamed3CP014128.2=NZ_CP014128.2

Assembly statistics

MoleculeTotal
Length
All4,808,855
Chromosome 4,050,121
Plasmid unnamed190,511
Plasmid unnamed2470,309
Plasmid unnamed3197,914

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Pantoea vagansPantoea vagans

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_004792415.1Pantoea vaganstype

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_004792415.1Pantoea vaganstype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type96.5386.6987.02
Best-match type96.5386.6987.02

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna