Plasmid NZ_CP080558.1

Sequence

Nucleotide Information

Accession NZ_CP080558.1
Description Staphylococcus aureus strain HL17078 plasmid pHL17078_2, complete sequence
Source refseq
Topology circular
Length 19845 bp
GC Content 0.29 %
Created at NCBI Aug. 12, 2021



Assembly

Genome Data Information

Accession GCF_019551175.1
Assembly Coverage 515


Biosample

Curated Collection Information
Accession 17301232

PLASMID INFORMATION

GEOGRAPHICAL INFORMATION
Original Query 37.5362N;127.1356E
Original Query Type coordinates
Coordinates (Lat/Lon) 37.54/127.14
Address Kangdong Sacred Heart Hospital, Cheonho-daero 173-gil, Gil-dong, Gangdong-gu, Seoul, 05332, South Korea

ECOSYSTEM
Original Query Homo sapiens,blood
Classification blood,circulatory_system,host_associated
Host-associated Taxon
  • Homo sapiens (9606)

DISEASE
Original Query Bacteremia
DOID/SYMP
  • Bacterial infectious disease (DOID:104 )
    • A disease by infectious agent that results_in infection, has_material_basis_in Bacteria.
    • Has_material_basis_in: ['bacteria']

Visualization

PNG JSON

Plasmids from same Biosample



Similar Plasmids

based on Mash distance

NZ_CP080558.1 See Comparison


Plasmid Visualization

JSON GENBANK

SourceElement Name Display Sequence Favorite
amrfinderplusblaIcopy
amrfinderplusblaR1copy
rgimsrAcopy
amrfinderplusblaZcopy
amrfinderpluscadDcopy
rgimphCcopy
amrfinderplusmph(C)copy
rgiPC1 beta-lactamase (blaZ)copy
amrfinderplusmsr(A)copy
PGAGmetalloregulator ArsR/SmtB family transcription factorcopy
SourceElement NameDisplaySequenceFavorite
Showing 1 to 10 of 30 entries



Annotations

based on the NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
NUCCORE ACCGeneLocus TagProductProtein idCodon StartTranslation TableGO process
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NUCCORE ACCGeneLocus TagProductProtein idCodon StartTranslation TableGO process



Antimicrobial Resistance

based on NCBIAMRFinder and CARD
NUCCORE ACCAnalysis Software NameReference Database VersionGene SymbolGene NameDrug ClassAntimicrobial AgentGene StartGene StopGene LengthStrand OrientationSequence Identity (%)Coverage (%)
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NUCCORE ACCAnalysis Software NameReference Database VersionGene SymbolGene NameDrug ClassAntimicrobial AgentGene StartGene StopGene LengthStrand OrientationSequence Identity (%)Coverage (%)



Typing

based on MOB-Typer and Plasmid Multilocus Sequencing Typing (PMLST)
NUCCORE ACCReplicon TypeRelaxase TypeMPF Type OriT Type Predicted Mobility Primary Cluster ID Secondary Cluster ID Observed Host Range Ncbi NameMash Neighbor DistanceReported Host Range Lit Rank
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NUCCORE ACCReplicon TypeRelaxase TypeMPF TypeOriT TypePredicted MobilityPrimary Cluster IDSecondary Cluster IDObserved Host Range Ncbi NameMash Neighbor DistanceReported Host Range Lit Rank




BLAST results of detected typing markers by MOB-type
biomarkerMOB-suite IDElementStartEndStrandIdentityCoverageEvalueBitscore
oriTNZ_AGFM01000123MOB_unknown1693117076plus96.575886.92e-62243
repliconCP000737rep_cluster_17331441115154minus10010001375
repliconAP003139rep_cluster_21001558016563plus99.59310001796
replicon000261__GQ900456rep_cluster_10171669416865plus94.186916.2e-68263
biomarkerMOB-suite IDElementStartEndStrandIdentityCoverageEvalueBitscore
Showing 1 to 4 of 4 entries


Detected typing markers by plasmidfinder
NUCCORE ACCTypingIdentityCoverageStartEndStrandOrganism L1Organism L2
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NUCCORE ACCTypingIdentityCoverageStartEndStrandOrganism L1Organism L2