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ASM2172815v1

Organism name:
Vibrio sp. J2-4 (g-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: J2-4
BioSample:
SAMN25209975
BioProject:
PRJNA799811
Submitter:
shandong university
Date:
2022/01/30
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_021728155.1 (latest)
RefSeq assembly accession:
GCF_021728155.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JAKKCN01
Assembly method:
SPAdes v. v3.11.1
Expected final version:
yes
Genome coverage:
368.0x
Sequencing technology:
Illumina HiSeq

IDs: 11890131 [UID] 31263788 [GenBank] 31547978 [RefSeq]

See Genome Information for Vibrio sp. J2-4

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::01/25/2022 15:42:27
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::5.3
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::5,213
CDSs (total)::5,108
Genes (coding)::5,026
CDSs (with protein)::5,026
Genes (RNA)::105
rRNAs::5, 4, 1 (5S, 16S, 23S)
complete rRNAs::5, 1 (5S, 23S)
partial rRNAs::4 (16S)
tRNAs::91
ncRNAs::4
Pseudo Genes (total)::82
CDSs (without protein)::82
Pseudo Genes (ambiguous residues)::0 of 82
Pseudo Genes (frameshifted)::34 of 82
Pseudo Genes (incomplete)::44 of 82
Pseudo Genes (internal stop)::18 of 82
Pseudo Genes (multiple problems)::10 of 82
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,454,024
Total ungapped length5,453,824
Gaps between scaffolds0
Number of scaffolds36
Scaffold N50975,654
Scaffold L503
Number of contigs38
Contig N50750,666
Contig L503
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)36

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
unplaced5,454,024365,453,824975,65420

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Vibrio sp. J2-4Vibrio sp. J2-4

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_001048675.1Vibrio diabolicussuspected-type

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type98.0087.5293.00

ANI result

Taxonomy check statusBest match statusComment
OKgenus-matchna