Plasmid CP052961.1

Sequence

Nucleotide Information

Accession CP052961.1
Description Staphylococcus epidermidis strain HD46-1 plasmid pHD46-1_2, complete sequence
Source insd
Topology circular
Length 2366 bp
GC Content 0.31 %
Created at NCBI Feb. 9, 2021



Assembly

Genome Data Information

Accession GCF_016855465.1
Assembly Coverage 200


Biosample

Curated Collection Information
Accession 14732902

PLASMID INFORMATION

GEOGRAPHICAL INFORMATION
Original Query 53.33N;10.1E
Original Query Type coordinates
Coordinates (Lat/Lon) 53.33/10.10
Address Zum Woldberg, Winsen (Luhe), Harburg, Lower Saxony, 21423, Germany

ECOSYSTEM
Original Query Homo sapiens,nose; prosthetic joint infection
Classification disease,host_associated
Host-associated Taxon
  • Homo sapiens (9606)

DISEASE
Original Query Prosthesis Related Infections
DOID/SYMP
  • Disease infectious agent (DOID:0050117 )
    • A disease that is the consequence of the presence of pathogenic microbial agents, including pathogenic viruses, pathogenic bacteria, fungi, protozoa, multicellular parasites, and aberrant proteins known as prions.

Visualization

PNG JSON

Plasmids from same Biosample



Similar Plasmids

based on Mash distance

NZ_LT571451.1 See Comparison
NZ_CP013617.1 See Comparison
NC_019143.1 See Comparison
NC_013305.1 See Comparison
NC_007170.1 See Comparison
NZ_CP033816.1 See Comparison
NZ_CP039165.1 See Comparison
NZ_CP033783.1 See Comparison
NZ_CP025398.1 See Comparison
NZ_CP133665.1 See Comparison
NZ_CP069950.1 See Comparison
NZ_KX011076.1 See Comparison
NZ_CP131673.1 See Comparison
CP052996.1 See Comparison
NZ_CP069478.1 See Comparison
CP052983.1 See Comparison
CP052950.1 See Comparison
NZ_CP119114.1 See Comparison
NZ_CP065198.1 See Comparison
CP102662.1 See Comparison
CP113402.1 See Comparison
CP113398.1 See Comparison
NZ_LT571451.1 See Comparison
NZ_CP013617.1 See Comparison
NC_019143.1 See Comparison
NC_013305.1 See Comparison
NC_007170.1 See Comparison
NZ_CP033816.1 See Comparison
NZ_CP039165.1 See Comparison
NZ_CP065198.1 See Comparison
NZ_CP033783.1 See Comparison
NZ_CP133665.1 See Comparison
NZ_CP069950.1 See Comparison
CP052950.1 See Comparison
NZ_CP025398.1 See Comparison
NZ_CP131673.1 See Comparison
NZ_KX011076.1 See Comparison
NZ_CP069478.1 See Comparison
NZ_CP119114.1 See Comparison
CP113402.1 See Comparison
CP113398.1 See Comparison
NZ_LT571451.1 See Comparison
CP052996.1 See Comparison
CP052983.1 See Comparison
CP102662.1 See Comparison
NZ_CP013617.1 See Comparison
NC_019143.1 See Comparison
NC_013305.1 See Comparison
NZ_KX011076.1 See Comparison
NC_007170.1 See Comparison
NZ_CP033816.1 See Comparison
NZ_CP039165.1 See Comparison
NZ_CP133665.1 See Comparison
NZ_CP131673.1 See Comparison
NZ_CP033783.1 See Comparison
NZ_CP025398.1 See Comparison
CP113402.1 See Comparison
NZ_CP069478.1 See Comparison
CP052996.1 See Comparison
CP052983.1 See Comparison
CP052950.1 See Comparison
NZ_CP119114.1 See Comparison
NZ_CP069950.1 See Comparison
NZ_CP065198.1 See Comparison
CP113398.1 See Comparison
NZ_LT571451.1 See Comparison
CP102662.1 See Comparison
NC_019143.1 See Comparison
NZ_CP013617.1 See Comparison
NC_013305.1 See Comparison
NZ_CP039165.1 See Comparison
NC_007170.1 See Comparison
NZ_CP033816.1 See Comparison
NZ_CP033783.1 See Comparison
NZ_CP025398.1 See Comparison
NZ_CP133665.1 See Comparison
NZ_KX011076.1 See Comparison
NZ_CP131673.1 See Comparison
NZ_CP069950.1 See Comparison
CP052996.1 See Comparison
NZ_CP069478.1 See Comparison
CP052983.1 See Comparison
CP052961.1 See Comparison
CP052950.1 See Comparison
NZ_CP119114.1 See Comparison
NZ_CP065198.1 See Comparison
CP113402.1 See Comparison
CP113398.1 See Comparison
NC_019143.1 See Comparison
CP102662.1 See Comparison
NZ_CP013617.1 See Comparison
NZ_LT571451.1 See Comparison
NC_007170.1 See Comparison
NZ_CP033816.1 See Comparison
NZ_CP039165.1 See Comparison
NZ_CP025398.1 See Comparison
NC_013305.1 See Comparison
NZ_CP033783.1 See Comparison
NC_019143.1 See Comparison
NZ_CP133665.1 See Comparison
NZ_CP069478.1 See Comparison
NZ_CP119114.1 See Comparison
CP113402.1 See Comparison
CP113398.1 See Comparison
CP102662.1 See Comparison
NZ_CP013617.1 See Comparison
NC_013305.1 See Comparison
NZ_CP131673.1 See Comparison
NZ_KX011076.1 See Comparison
NZ_CP069950.1 See Comparison
CP052996.1 See Comparison
CP052983.1 See Comparison
CP052950.1 See Comparison
NZ_CP065198.1 See Comparison
NZ_LT571451.1 See Comparison
NZ_CP033816.1 See Comparison
NC_007170.1 See Comparison
NZ_CP039165.1 See Comparison
NZ_CP033783.1 See Comparison
NZ_CP025398.1 See Comparison
NZ_KX011076.1 See Comparison
NZ_CP133665.1 See Comparison
NZ_CP131673.1 See Comparison
NZ_CP119114.1 See Comparison
NZ_CP069950.1 See Comparison
CP052996.1 See Comparison
CP052983.1 See Comparison
CP052950.1 See Comparison
NZ_CP065198.1 See Comparison
NZ_CP069478.1 See Comparison
CP113402.1 See Comparison
CP113398.1 See Comparison
NZ_LT571451.1 See Comparison
CP102662.1 See Comparison
NZ_CP013617.1 See Comparison
NC_019143.1 See Comparison
NC_013305.1 See Comparison
NC_007170.1 See Comparison
NZ_CP033816.1 See Comparison
NZ_CP039165.1 See Comparison
NZ_CP131673.1 See Comparison
NZ_CP025398.1 See Comparison
NZ_CP133665.1 See Comparison
NZ_CP033783.1 See Comparison
NZ_CP065198.1 See Comparison
NZ_CP069478.1 See Comparison
NZ_KX011076.1 See Comparison
NZ_CP069950.1 See Comparison
CP052996.1 See Comparison
CP052983.1 See Comparison
CP052950.1 See Comparison
CP102662.1 See Comparison
NZ_CP119114.1 See Comparison
CP113402.1 See Comparison
CP113398.1 See Comparison


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