Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 3 | 0 | 1 | 3.16 |
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. |
|---|---|---|---|---|---|---|---|---|
| HAPAPPHC_1 | 3995477 | 3996442 | CfxA2 | ARO:3003002 | CfxA2 | 99.69 | 100.00 | AF118110.1 |
| HAPAPPHC_2 | 142859 | 144784 | tet(Q) | ARO:3000191 | tet(Q) | 89.08 | 97.56 | Z21523.1 |
| HAPAPPHC_2 | 81531 | 83477 | tet(Q) | ARO:3000191 | tet(Q) | 96.39 | 98.63 | 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. |
|---|---|---|---|---|---|---|---|
| HAPAPPHC_2 | 81531 | 83443 | tet(Q) | Doxycycline, Tetracycline, Minocycline | 99.84317825405122 | 99.33 | L33696 |
| HAPAPPHC_1 | 3995477 | 3996442 | cfxA3 | Ampicillin | 99.79 | 100.00 | AF472622 |
| HAPAPPHC_1 | 3995477 | 3996442 | cfxA4 | Unknown Beta-lactam | 99.79 | 100.00 | AY769933 |
| HAPAPPHC_1 | 3995477 | 3996442 | cfxA5 | Unknown Beta-lactam | 99.79 | 100.00 | AY769934 |
| HAPAPPHC_1 | 3995477 | 3996442 | cfxA | Cefoxitin, Ampicillin | 99.79 | 100.00 | 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. |
|---|---|---|---|---|---|---|---|---|
| HAPAPPHC_1 | 3995480 | 3996442 | cfxA | CfxA family broad-spectrum class A beta-lactamase | BLASTX | 99.69 | 100.00 | WP_004339683.1 |
| HAPAPPHC_2 | 81531 | 83444 | tet(Q) | tetracycline resistance ribosomal protection protein Tet(Q) | BLASTX | 99.37 | 99.53 | WP_063856407.1 |
| HAPAPPHC_2 | 142862 | 144784 | tet(Q) | tetracycline resistance ribosomal protection protein Tet(Q) | BLASTX | 89.55 | 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 |
|---|---|---|---|---|---|---|---|---|
| HAPAPPHC_1 | 4614437 | 4616017 | GroEL | 0.0 | folding of newly synthesized proteins, preventing misfolding and aggregation | 86.91 | 96.70 | 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. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| HAPAPPHC_1 | 0.0 | 1.0 | 0.0 |
| HAPAPPHC_2 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| HAPAPPHC_1 | 2256128 | 2268123 | False | Siphoviridae | VOG10379, |
Phigaro v2.4.0 (Database: Jan. 2024 release)