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ASM2286933v1

Organism name:
Pantoea vagans (enterobacteria)
Taxonomy check:
OK
Isolate:
MCPNR19-02
BioSample:
SAMN27114203
BioProject:
PRJNA795459
Submitter:
University of California, Riverside
Date:
2022/04/10
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
Excluded from RefSeq:
  • annotation fails MAG completeness check
  • derived from metagenome
GenBank assembly accession:
GCA_022869335.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
JALIHM01
Assembly method:
wtdbg2 v. 2.5
Expected final version:
yes
Genome coverage:
30.83x
Sequencing technology:
Oxford Nanopore MinION; Illumina NovaSeq

IDs: 12472831 [UID] 32655198 [GenBank]

See Genome Information for Pantoea vagans

There are 33 assemblies for this organism

See more

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
Annotation Date::04/05/2022 08:55:01
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::6.1
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::3,818
CDSs (total)::3,712
Genes (coding)::3,533
CDSs (with protein)::3,533
Genes (RNA)::106
rRNAs::7, 6, 6 (5S, 16S, 23S)
complete rRNAs::7, 6, 6 (5S, 16S, 23S)
tRNAs::71
ncRNAs::16
Pseudo Genes (total)::179
CDSs (without protein)::179
Pseudo Genes (ambiguous residues)::0 of 179
Pseudo Genes (frameshifted)::145 of 179
Pseudo Genes (incomplete)::39 of 179
Pseudo Genes (internal stop)::16 of 179
Pseudo Genes (multiple problems)::20 of 179
##Genome-Annotation-Data-END##

Global statistics

Total sequence length3,966,629
Total ungapped length3,966,629
Number of contigs1
Contig N503,966,629
Contig L501
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)1

Supplemental Content

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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
Contig
Count
Ungapped
Length
Contig
N50
Spanned
Gaps
Unspanned
Gaps
unplaced3,966,62913,966,6293,966,62900

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 type97.5687.9572.83
Best-match type97.5687.9572.83

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna