Plasmid NZ_CP014378.1
Sequence
Nucleotide Information
| Accession | NZ_CP014378.1 |
|---|---|
| Description | Staphylococcus aureus strain USA300-SUR5 plasmid pUSA04-2-SUR5, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 25980 bp |
| GC Content | 0.31 % |
| Created at NCBI | Oct. 4, 2018 |
Host Taxonomy
According to NCBI Taxonomy
| Assigned Host | Staphylococcus aureus (1280) |
|---|
Lineage
| Superkingdom | Bacteria (2) |
|---|---|
| Phylum | Bacillota (1239) |
| Class | Bacilli (91061) |
| Order | Bacillales (1385) |
| Family | Staphylococcaceae (90964) |
| Genus | Staphylococcus (1279) |
| Species | Staphylococcus_aureus (1280) |
| Strain |
Biosample
Curated Collection Information
| Accession | 4497599 |
|---|
PLASMID INFORMATION
GEOGRAPHICAL INFORMATION
| Original Query | 5.866667N;55.166667W |
|---|---|
| Original Query Type | coordinates |
| Coordinates (Lat/Lon) | 5.87/-55.17 |
| Address | Nieuwe Charlesburgweg, Rainville, Paramaribo, Suriname |
ECOSYSTEM
| Original Query | Homo sapiens,sputum |
|---|---|
| Classification | host_associated,respiratory_system |
| Host-associated Taxon |
|
DISEASE
| Original Query | None |
|---|---|
| DOID/SYMP |
Visualization
Plasmids from same Biosample
Similar Plasmids
based on Mash distance
Plasmid Visualization
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Annotations
based on the NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
| NUCCORE ACC | Gene | Locus Tag | Product | Protein id | Codon Start | Translation Table | GO process |
|---|---|---|---|---|---|---|---|
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| 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 (%) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
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| 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 | Replicon Type | Relaxase Type | MPF Type | OriT Type | Predicted Mobility | Primary Cluster ID | Secondary Cluster ID | Observed Host Range Ncbi Name | Mash Neighbor Distance | Reported Host Range Lit Rank |
|---|---|---|---|---|---|---|---|---|---|---|
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| NUCCORE ACC | Replicon Type | Relaxase Type | MPF Type | OriT Type | Predicted Mobility | Primary Cluster ID | Secondary Cluster ID | Observed Host Range Ncbi Name | Mash Neighbor Distance | Reported Host Range Lit Rank |
BLAST results of detected typing markers by MOB-type
| biomarker | MOB-suite ID | Element | Start | End | Strand | Identity | Coverage | Evalue | Bitscore |
|---|---|---|---|---|---|---|---|---|---|
| oriT | AF001314 | MOBQ | 18073 | 18221 | minus | 100 | 100 | 5.980000000000001e-72 | 276 |
| replicon | 000261__GQ900456 | rep_cluster_1017 | 18279 | 18455 | minus | 92.697 | 94 | 1.04e-65 | 255 |
| replicon | AP003139 | rep_cluster_2100 | 18586 | 19569 | minus | 99.593 | 100 | 0 | 1796 |
| replicon | CP000737 | rep_cluster_1733 | 19995 | 20738 | plus | 100 | 100 | 0 | 1375 |
| biomarker | MOB-suite ID | Element | Start | End | Strand | Identity | Coverage | Evalue | Bitscore |
Showing 1 to 4 of 4 entries
Detected typing markers by plasmidfinder
| NUCCORE ACC | Typing | Identity | Coverage | Start | End | Strand | Organism L1 | Organism L2 |
|---|---|---|---|---|---|---|---|---|
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| NUCCORE ACC | Typing | Identity | Coverage | Start | End | Strand | Organism L1 | Organism L2 |