Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 0 | 1 | 2.24 |
PPRS is classified as low-risk (≤4), medium-risk (4-6), and high-risk (≥6).
Antibiotic resistance genes
Comprehensive Antibiotic Resistance Database (CARD)
| Query ID | Begin | End | ARO name | ARO accession | CARD name | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| LINMKDMP_1 | 3338533 | 3340458 | tet(Q) | ARO:3000191 | tet(Q) | 96.41 | 97.56 | Z21523.1 |
RGI v6.0.3 (Database: CARD Variants v4.0.2, Nov. 2023 release)
ResFinder
| Query ID | Begin | End | Resistance gene | Phenotype | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|
| LINMKDMP_1 | 3338533 | 3340458 | tet(Q) | Doxycycline, Tetracycline, Minocycline | 99.84 | 100.00 | L33696 |
| LINMKDMP_1 | 1756620 | 1757584 | cfxA3 | Ampicillin | 99.59 | 99.90 | AF472622 |
| LINMKDMP_1 | 1756620 | 1757584 | cfxA4 | Unknown Beta-lactam | 99.59 | 99.90 | AY769933 |
| LINMKDMP_1 | 1756620 | 1757584 | cfxA5 | Unknown Beta-lactam | 99.59 | 99.90 | AY769934 |
| LINMKDMP_1 | 1756620 | 1757584 | cfxA | Cefoxitin, Ampicillin | 99.59 | 99.90 | U38243 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| LINMKDMP_1 | 1756623 | 1757414 | cfxA | CfxA family broad-spectrum class A beta-lactamase | PARTIALX | 99.62 | 82.24 | WP_004339683.1 |
| LINMKDMP_1 | 3338536 | 3340458 | tet(Q) | tetracycline resistance ribosomal protection protein Tet(Q) | BLASTX | 99.53 | 100.00 | WP_063856407.1 |
AMRFinderPlus v4.0.3 (Database: Oct. 2024 release)
Virulence factors
Virulence Factor Database (VFDB)
| Query ID | qstart | qend | Gene name | e-value | VF name | VF category | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|---|
| No hit found | |||||||||
BLASTN v2.16.0 (Database: VFDB, Dec. 2024 release)
VirulenceFinder
| Query ID | Begin | End | Database | Virulence factor | Protein function | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| No hit found | ||||||||
VirulenceFinder v2.0. 4 (Database: virulencefinder_db, Feb . 2024 release)
Pathogenic genes
PHI-base
| Query ID | qstart | qend | Gene name | e-value | Function | Identity | Coverage | Gene ID |
|---|---|---|---|---|---|---|---|---|
| LINMKDMP_1 | 5070053 | 5071390 | GroEL | 0.0 | folding of newly synthesized proteins, preventing misfolding and aggregation | 86.55 | 81.83 | BAA04222 |
BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)
Plasmid
PlasmidFinder
| Query ID | Begin | End | Plasmid | Query / Template | Identity | Accession no. |
|---|---|---|---|---|---|---|
| LINMKDMP_2 | 1 | 614 | repUS2 | 616 / 681 | 98.54 | BFU30316 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| LINMKDMP_1 | 0.0 | 1.0 | 0.0 |
| LINMKDMP_2 | 1.0 | 0.0 | 1.0 |
| LINMKDMP_3 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| LINMKDMP_1 | 602686 | 608968 | False | Unknown | VOG0327, |
| LINMKDMP_1 | 1482499 | 1486719 | False | Myoviridae | VOG4552, |
| LINMKDMP_1 | 2628941 | 2639352 | False | Siphoviridae | VOG3691, |
| LINMKDMP_1 | 2826920 | 2832843 | False | Unknown | VOG4548, |
Phigaro v2.4.0 (Database: Jan. 2024 release)