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. |
|---|---|---|---|---|---|---|---|---|
| PHDNKDOO_4 | 3913 | 4650 | ErmB | ARO:3000375 | ErmB | 98.78 | 98.79 | AF242872.1 |
| PHDNKDOO_4 | 2559 | 3203 | 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. |
|---|---|---|---|---|---|---|---|
| PHDNKDOO_4 | 3913 | 4650 | erm(B) | Erythromycin, Lincomycin, Clindamycin, Quinupristin, Pristinamycin IA, Virginiamycin S | 100.00 | 100.00 | U18931 |
| PHDNKDOO_4 | 2559 | 3203 | 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. |
|---|---|---|---|---|---|---|---|---|
| PHDNKDOO_4 | 3916 | 4650 | erm(B) | 23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(B) | EXACTX | 100.00 | 100.00 | WP_002292226.1 |
| PHDNKDOO_4 | 2562 | 3203 | 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 |
|---|---|---|---|---|---|---|---|---|
| PHDNKDOO_1 | 494230 | 493523 | WalR | 6.48e-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. |
|---|---|---|---|---|---|---|
| PHDNKDOO_4 | 20055 | 21543 | 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 |
|---|---|---|---|
| PHDNKDOO_1 | 0.0 | 1.0 | 0.0 |
| PHDNKDOO_2 | 1.0 | 0.0 | 1.0 |
| PHDNKDOO_3 | 1.0 | 0.0 | 1.0 |
| PHDNKDOO_4 | 1.0 | 0.0 | 1.0 |
| PHDNKDOO_5 | 1.0 | 0.0 | 1.0 |
| PHDNKDOO_6 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| PHDNKDOO_1 | 16365 | 41291 | False | Siphoviridae | VOG0703, VOG1637, VOG0608, VOG10608, VOG1335, VOG6163, VOG1334, VOG1333, VOG4634, VOG0704, VOG1330, VOG4713, VOG1887, VOG3434, VOG10914, VOG4564, VOG7038, VOG0720, VOG1517, VOG0638, VOG4618 |
| PHDNKDOO_1 | 48790 | 59808 | False | Siphoviridae | VOG5545, VOG0536, VOG0586, VOG5317, VOG5280, VOG6495, VOG0025, VOG4799, VOG0514, VOG6545, VOG0322, VOG6212, VOG0685, VOG5744, VOG7236, VOG8520 |
| PHDNKDOO_1 | 1786257 | 1814211 | False | Siphoviridae | VOG4705, VOG0804, VOG8438, VOG4619, VOG0801, VOG5793, VOG0701, VOG9763, VOG0698, VOG0697, VOG0696, VOG0695, VOG4555, VOG0692, VOG0691, VOG4544, VOG3699, VOG8681, VOG0198, VOG0327, VOG4609, VOG4632, VOG6545 |
| PHDNKDOO_6 | 23156 | 30949 | False | Siphoviridae | VOG10980, VOG0198, VOG4693, VOG1154, VOG4602, VOG4602, VOG4693, VOG0198 |
Phigaro v2.4.0 (Database: Jan. 2024 release)