Plasmid CP049370.1
Sequence
Nucleotide Information
| Accession | CP049370.1 |
|---|---|
| Description | Staphylococcus aureus strain pt301 plasmid pER08829.3B.1, complete sequence |
| Source | insd |
| Topology | circular |
| Length | 41668 bp |
| GC Content | 0.29 % |
| Created at NCBI | Sept. 24, 2020 |
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 | 12331118 |
|---|
PLASMID INFORMATION
GEOGRAPHICAL INFORMATION
| Original Query | 40.7903114N;73.9528738W |
|---|---|
| Original Query Type | coordinates |
| Coordinates (Lat/Lon) | 40.79/-73.95 |
| Address | Guggenheim Pavilion, 1190, 5th Avenue, Manhattan Community Board 11, Manhattan, New York County, New York, 10029, United States |
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
Purples
Reds
Oranges
Greens
100
Hex
R
G
B
| Source | Element Name | Display | Sequence | Favorite |
|---|---|---|---|---|
| amrfinderplus | aac(6')-Ie/aph(2'')-Ia | copy | ||
| rgi | qacJ | copy | ||
| rgi | AAC(6')-Ie-APH(2'')-Ia bifunctional protein | copy | ||
| rgi | Staphylococcus aureus mupA conferring resistance to mupirocin | copy | ||
| amrfinderplus | qacC | copy | ||
| amrfinderplus | mupA | copy | ||
| PGAG | IS6-like element IS257 family transposase | copy | ||
| PGAG | GNAT family N-acetyltransferase | copy | ||
| PGAG | aph(2'')-Ia | copy | ||
| PGAG | IS6-like element IS257-2 family transposase | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 50 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 (%) |
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 |
|---|---|---|---|---|---|---|---|---|---|
| replicon | 000421__NC_013320_00022 | rep_cluster_1142 | 19354 | 20313 | plus | 100 | 100 | 0 | 1773 |
| replicon | 000260__GQ900396 | rep_cluster_1017 | 21171 | 21985 | minus | 99.877 | 100 | 0 | 1500 |
| replicon | 000261__GQ900456 | rep_cluster_1017 | 23222 | 23410 | minus | 88.889 | 100 | 4.86e-59 | 233 |
| relaxase | NC_013653_00017 | MOBQ | 14267 | 16261 | minus | 96.992 | 100 | 0 | 1313 |
| mate-pair-formation | NC_010279_00007 | MPF_T | 27085 | 29094 | plus | 97.91 | 100 | 0 | 1240 |
| mate-pair-formation | NC_013653_00035 | MPF_T | 34573 | 36186 | plus | 97.222 | 99 | 0 | 873 |
| 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 |