Plasmid NZ_CP096534.1

Sequence

Nucleotide Information

Accession NZ_CP096534.1
Description Staphylococcus aureus strain RIVM_M083782 plasmid pM083782_2, complete sequence
Source refseq
Topology circular
Length 2361 bp
GC Content 0.29 %
Created at NCBI Dec. 2, 2022



Assembly

Genome Data Information

Accession GCF_026547075.1
Assembly Coverage 30


Biosample

Curated Collection Information
Accession 27760540

PLASMID INFORMATION
Genotype GG0398 (CC398)

GEOGRAPHICAL INFORMATION
Original Query 52.13N;5.29E
Original Query Type coordinates
Coordinates (Lat/Lon) 52.13/5.29
Address Verlengde Paltzerweg, Soest, Utrecht, Netherlands, 3768 MK, Netherlands

ECOSYSTEM
Original Query Homo sapiens,Urinairy tract
Classification host_associated,urinary_system
Host-associated Taxon
  • Homo sapiens (9606)
Host-associated Age 49
Host-associated Sex female

DISEASE
Original Query Bacteriuria
DOID/SYMP
  • Bacteriuria (DOID:1412 )
    • A urinary system disease which consists of the presence of bacteria in urine.

Visualization

PNG JSON

Plasmids from same Biosample




Plasmid Visualization

JSON GENBANK

NUCCORE ACC Source Element Name Display Sequence Favorite
NUCCORE ACC Source Element Name Display Sequence Favorite



Annotations

based on the NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
NUCCORE ACC Gene Locus Tag Product Protein id Codon Start Translation Table GO process
NUCCORE ACC Gene Locus Tag Product Protein id Codon Start Translation Table GO process



Antimicrobial Resistance

based on NCBIAMRFinder and CARD
NUCCORE ACC Analysis Software Name Reference Database Version Gene Symbol Gene Name Drug Class Antimicrobial Agent Gene Start Gene Stop Gene Length Strand Orientation Sequence Identity (%) Coverage (%)
NUCCORE ACC Analysis Software Name Reference Database Version Gene Symbol Gene Name Drug Class Antimicrobial Agent Gene Start Gene Stop Gene Length Strand Orientation Sequence Identity (%) Coverage (%)



Typing

based on MOB-Typer and Plasmid Multilocus Sequencing Typing (PMLST)
NUCCORE ACC Contigs md5 hash Replicon Type Relaxase Type MPF Type OriT Type Predicted Mobility Primary Cluster ID Secondary Cluster ID Observed Host Range Ncbi Rank Observed Host Range Ncbi Name Mash Nearest Neighbor Mash Neighbor Distance Mash Neighbor Identification Reported Host Range Lit Rank Reported Host Range Lit Name Replicon Type Accession Relaxase Type Accession MPF Type Accession OriT Type Accession Associated PMID(s)
NUCCORE ACC Contigs md5 hash Replicon Type Relaxase Type MPF Type OriT Type Predicted Mobility Primary Cluster ID Secondary Cluster ID Observed Host Range Ncbi Rank Observed Host Range Ncbi Name Mash Nearest Neighbor Mash Neighbor Distance Mash Neighbor Identification Reported Host Range Lit Rank Reported Host Range Lit Name Replicon Type Accession Relaxase Type Accession MPF Type Accession OriT Type Accession Associated PMID(s)




BLAST results of detected typing markers by MOB-type
NUCCORE ACC biomarker MOB-suite ID Element Start End Strand Identity Coverage Evalue Bitscore
NUCCORE ACC biomarker MOB-suite ID Element Start End Strand Identity Coverage Evalue Bitscore


Detected typing markers by plasmidfinder
NUCCORE ACC Typing Identity Coverage Start End Strand HSP length Template length Position in ref Positions in Contig Note Accession Hit id Organism L1 Organism L2
NUCCORE ACC Typing Identity Coverage Start End Strand HSP length Template length Position in ref Positions in Contig Note Accession Hit id Organism L1 Organism L2