Plasmid NZ_CP009560.1
Sequence
Nucleotide Information
Accession | NZ_CP009560.1 |
---|---|
Description | Salmonella enterica subsp. enterica serovar Newport str. CVM 22425 plasmid pCVM22425, complete sequence |
Source | refseq |
Topology | circular |
Length | 158195 bp |
GC Content | 0.52 % |
Created at NCBI | March 1, 2015 |
Host Taxonomy
According to NCBI Taxonomy
Lineage
Superkingdom | Bacteria (2) |
---|---|
Phylum | Pseudomonadota (1224) |
Class | Gammaproteobacteria (1236) |
Order | Enterobacterales (91347) |
Family | Enterobacteriaceae (543) |
Genus | Salmonella (590) |
Species | Salmonella_enterica (28901) |
Strain | Salmonella_enterica_subsp._enterica_serovar_Newport_str._CVM_22425 (796730) |
Biosample
Curated Collection Information
Accession | 1813481 |
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PLASMID INFORMATION
GEOGRAPHICAL INFORMATION
Original Query | USA,AZ |
---|---|
Original Query Type | name |
Coordinates (Lat/Lon) | 34.40/-111.76 |
Address | USA,AZ |
ECOSYSTEM
Original Query | Bos taurus,cattle |
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Classification | host_associated |
Host-associated Taxon |
|
DISEASE
Original Query | None |
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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 | aph(3'')-Ib | copy | ||
amrfinderplus | floR | copy | ||
amrfinderplus | merR | copy | ||
amrfinderplus | merP | copy | ||
amrfinderplus | merT | copy | ||
amrfinderplus | merB | copy | ||
amrfinderplus | merD | copy | ||
amrfinderplus | merE | copy | ||
amrfinderplus | sul2 | copy | ||
amrfinderplus | tet(A) | copy | ||
Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 192 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 |
---|---|---|---|---|---|---|---|---|---|
mate-pair-formation | NC_012885_00088 | MPF_T | 15447 | 17891 | plus | 98.16 | 100 | 0 | 1640 |
mate-pair-formation | NC_012885_00091 | MPF_F | 18716 | 19978 | plus | 94.076 | 100 | 0 | 821 |
mate-pair-formation | NC_023291_00077 | MPF_F | 20646 | 21650 | plus | 99.403 | 100 | 0 | 582 |
mate-pair-formation | NC_012885_00167 | MPF_F | 82040 | 83470 | plus | 97.484 | 100 | 0 | 931 |
mate-pair-formation | NC_009140_00071 | MPF_F | 141515 | 143377 | plus | 100 | 100 | 0 | 1177 |
mate-pair-formation | NC_014170_00023 | MPF_F | 147800 | 148714 | plus | 92.131 | 100 | 0 | 569 |
mate-pair-formation | NC_012885_00083 | MPF_F | 148714 | 150027 | plus | 90.411 | 100 | 0 | 752 |
mate-pair-formation | NC_016974_00085 | MPF_F | 150027 | 150602 | plus | 99.479 | 100 | 1.07e-114 | 365 |
mate-pair-formation | NC_012885_00088 | MPF_T | 152245 | 152946 | minus | 96.581 | 100 | 3.45e-147 | 486 |
relaxase | NC_012885_00072 | MOBH | 138546 | 141512 | plus | 88.799 | 99 | 0 | 1597 |
biomarker | MOB-suite ID | Element | Start | End | Strand | Identity | Coverage | Evalue | Bitscore |
Showing 1 to 10 of 13 entries