Plasmid NZ_CP080549.1
Sequence
Nucleotide Information
| Accession | NZ_CP080549.1 |
|---|---|
| Description | Staphylococcus aureus strain HL18888 plasmid pHL18888, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 24653 bp |
| GC Content | 0.29 % |
| Created at NCBI | Aug. 12, 2021 |
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 | 17301237 |
|---|
PLASMID INFORMATION
GEOGRAPHICAL INFORMATION
| Original Query | 37.5362N;127.1361E |
|---|---|
| Original Query Type | coordinates |
| Coordinates (Lat/Lon) | 37.54/127.14 |
| Address | 강동성심병원 장례식장, Jinhwangdo-ro, Gil-dong, Gangdong-gu, Seoul, 05332, South Korea |
ECOSYSTEM
| Original Query | Homo sapiens,blood |
|---|---|
| Classification | blood,circulatory_system,host_associated |
| Host-associated Taxon |
|
DISEASE
| Original Query | Bacteremia |
|---|---|
| DOID/SYMP |
|
Visualization
Similar Plasmids
based on Mash distance
Plasmid Visualization
Grays
Blues
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Greens
100
Hex
R
G
B
| Source | Element Name | Display | Sequence | Favorite |
|---|---|---|---|---|
| amrfinderplus | arsC | copy | ||
| rgi | PC1 beta-lactamase (blaZ) | copy | ||
| amrfinderplus | arsR | copy | ||
| amrfinderplus | arsB | copy | ||
| amrfinderplus | blaI | copy | ||
| amrfinderplus | blaR1 | copy | ||
| amrfinderplus | blaZ | copy | ||
| amrfinderplus | cadD | copy | ||
| PGAG | recombinase family protein | copy | ||
| PGAG | Mu transposase C-terminal domain-containing protein | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 35 entries
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 (%) |
Biosynthetic Gene Clusters
based on ANTISMASH
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 | KM007159 | MOBP | 14946 | 15094 | plus | 100 | 100 | 5.980000000000001e-72 | 276 |
| replicon | AP003139 | rep_cluster_2214 | 10283 | 11143 | plus | 100 | 100 | 0 | 1591 |
| replicon | CP000737 | rep_cluster_1733 | 12429 | 13172 | minus | 99.866 | 100 | 0 | 1369 |
| replicon | AP003139 | rep_cluster_2100 | 13598 | 14581 | plus | 100 | 100 | 0 | 1818 |
| replicon | 000261__GQ900456 | rep_cluster_1017 | 14712 | 14882 | plus | 93.605 | 91 | 1.04e-65 | 255 |
| relaxase | AB304512_00007 | MOBV | 8709 | 9083 | plus | 100 | 100 | 4.78e-74 | 245 |
| biomarker | MOB-suite ID | Element | Start | End | Strand | Identity | Coverage | Evalue | Bitscore |
Showing 1 to 6 of 6 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 |