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. |
|---|---|---|---|---|---|---|---|---|
| LNDMNPJA_4 | 10477 | 11214 | ErmB | ARO:3000375 | ErmB | 98.78 | 98.79 | AF242872.1 |
| LNDMNPJA_4 | 9123 | 9767 | vatE | ARO:3002844 | vatE | 100.00 | 100.00 | AF242872.1 |
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. |
|---|---|---|---|---|---|---|---|
| LNDMNPJA_4 | 10477 | 11214 | erm(B) | Erythromycin, Lincomycin, Clindamycin, Quinupristin, Pristinamycin IA, Virginiamycin S | 100.00 | 100.00 | U18931 |
| LNDMNPJA_4 | 9123 | 9767 | vat(E) | Dalfopristin, Pristinamycin IIA, Virginiamycin M | 100.00 | 100.00 | AJ488494 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| LNDMNPJA_4 | 10480 | 11214 | erm(B) | 23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(B) | EXACTX | 100.00 | 100.00 | WP_002292226.1 |
| LNDMNPJA_4 | 9126 | 9767 | vat(E) | streptogramin A O-acetyltransferase Vat(E) | EXACTX | 100.00 | 100.00 | WP_002328813.1 |
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 |
|---|---|---|---|---|---|---|---|---|
| LNDMNPJA_1 | 1629551 | 1630258 | WalR | 6.33e-115 | transcriptional regulatory protein | 85.59 | 100.43 | EPH95667 |
BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)
Plasmid
PlasmidFinder
| Query ID | Begin | End | Plasmid | Query / Template | Identity | Accession no. |
|---|---|---|---|---|---|---|
| LNDMNPJA_4 | 1246 | 2734 | rep1 | 1490 / 1491 | 96.11 | U83488 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| LNDMNPJA_1 | 0.0 | 1.0 | 0.0 |
| LNDMNPJA_2 | 1.0 | 0.0 | 1.0 |
| LNDMNPJA_3 | 1.0 | 0.0 | 1.0 |
| LNDMNPJA_4 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| LNDMNPJA_1 | 207537 | 218555 | False | Siphoviridae | VOG8520, VOG8520, VOG7236, VOG5744, VOG0685, VOG6212, VOG0322, VOG6545, VOG0514, VOG4799, VOG0025, VOG6495, VOG5280, VOG5317, VOG0586, VOG0536 |
| LNDMNPJA_1 | 226054 | 250980 | False | Siphoviridae | VOG1422, VOG4618, VOG0638, VOG1517, VOG0720, VOG7038, VOG4564, VOG10914, VOG3434, VOG1887, VOG4713, VOG1330, VOG0704, VOG4634, VOG1333, VOG1334, VOG6163, VOG1335, VOG10608, VOG0608, VOG1637 |
Phigaro v2.4.0 (Database: Jan. 2024 release)