Plasmid NZ_CP062869.1
Sequence
Nucleotide Information
| Accession | NZ_CP062869.1 |
|---|---|
| Description | Escherichia coli strain Res13-Lact-PEB01-20 plasmid unnamed476, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 112549 bp |
| GC Content | 0.51 % |
| Created at NCBI | Nov. 19, 2020 |
Host Taxonomy
According to NCBI Taxonomy
| Assigned Host | Escherichia coli (562) |
|---|
Lineage
| Superkingdom | Bacteria (2) |
|---|---|
| Phylum | Pseudomonadota (1224) |
| Class | Gammaproteobacteria (1236) |
| Order | Enterobacterales (91347) |
| Family | Enterobacteriaceae (543) |
| Genus | Escherichia (561) |
| Species | Escherichia_coli (562) |
| Strain |
Biosample
Curated Collection Information
| Accession | 16304193 |
|---|
PLASMID INFORMATION
GEOGRAPHICAL INFORMATION
| Original Query | Canada,Quebec |
|---|---|
| Original Query Type | name |
| Coordinates (Lat/Lon) | 52.48/-71.83 |
| Address | Canada,Quebec |
ECOSYSTEM
| Original Query | Sus scrofa domesticus,feces |
|---|---|
| Classification | fecal,gastrointestinal_system,host_associated |
| Host-associated Taxon |
|
DISEASE
| Original Query | None |
|---|---|
| DOID/SYMP |
Visualization
Plasmids from same Biosample
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 | aadA5 | copy | ||
| amrfinderplus | sul2 | copy | ||
| amrfinderplus | blaCTX-M-1 | copy | ||
| amrfinderplus | dfrA17 | copy | ||
| rgi | dfrA17 | copy | ||
| PGAG | repA | copy | ||
| PGAG | IS91 family transposase | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | recombinase family protein | copy | ||
| PGAG | DUF3330 domain-containing protein | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 133 entries
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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 | HM021326 | MOBP | 52143 | 52235 | minus | 100 | 100 | 4.37e-41 | 172 |
| replicon | CP001118 | IncI-gamma/K1 | 46 | 1077 | plus | 100 | 100 | 0 | 1906 |
| relaxase | NC_019097 | MOBP | 52605 | 55298 | plus | 95.212 | 99 | 0 | 1686 |
| mate-pair-formation | NC_019097_00056 | MPF_I | 55371 | 57632 | minus | 98.806 | 92 | 0 | 1446 |
| mate-pair-formation | NC_022267_00057 | MPF_I | 65802 | 67001 | minus | 99.25 | 100 | 0 | 769 |
| mate-pair-formation | NC_019111_00038 | MPF_I | 71755 | 72156 | minus | 95.522 | 100 | 1.17e-50 | 178 |
| mate-pair-formation | NC_023290_00086 | MPF_I | 72210 | 72734 | minus | 99.429 | 100 | 3.4400000000000003e-100 | 322 |
| mate-pair-formation | NC_015965_00072 | MPF_I | 72737 | 73438 | minus | 99.573 | 100 | 4.56e-153 | 477 |
| mate-pair-formation | NC_019097_00075 | MPF_I | 74733 | 75713 | minus | 99.694 | 100 | 0 | 656 |
| mate-pair-formation | NC_022267_00069 | MPF_I | 75769 | 76416 | minus | 98.148 | 91 | 6.17e-142 | 445 |
| biomarker | MOB-suite ID | Element | Start | End | Strand | Identity | Coverage | Evalue | Bitscore |
Showing 1 to 10 of 12 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 |