Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 4 | 0 | 1 | 4.12 |
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. |
|---|---|---|---|---|---|---|---|---|
| APEEDJOO_4 | 12694 | 13179 | lnuA | ARO:3002835 | lnuA | 97.52 | 100.00 | M14039.1 |
| APEEDJOO_4 | 10277 | 10924 | catA8 | ARO:3004658 | catA8 | 96.74 | 100.00 | JQ922409.1 |
| APEEDJOO_4 | 7858 | 9234 | tet(L) | ARO:3000179 | tet(L) | 98.69 | 100.00 | M11036.1 |
| APEEDJOO_4 | 5739 | 7664 | tet(M) | ARO:3000186 | tet(M) | 97.35 | 100.31 | AB039845.1 |
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. |
|---|---|---|---|---|---|---|---|
| APEEDJOO_4 | 7859 | 9234 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 99.71 | 99.93 | AY081910 |
| APEEDJOO_4 | 10277 | 10924 | cat | Chloramphenicol | 98.77 | 100.00 | U35036 |
| APEEDJOO_4 | 12694 | 13179 | lnu(A) | Lincomycin | 98.77 | 100.00 | M14039 |
| APEEDJOO_4 | 5739 | 7664 | tet(M) | Doxycycline, Tetracycline, Minocycline | 97.98 | 100.00 | X75073 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| APEEDJOO_4 | 12697 | 13179 | lnu(A) | lincosamide nucleotidyltransferase Lnu(A) | EXACTX | 100.00 | 100.00 | WP_001829870.1 |
| APEEDJOO_4 | 7858 | 9231 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 99.13 | 100.00 | WP_002294500.1 |
| APEEDJOO_4 | 5739 | 7661 | tet(M) | tetracycline resistance ribosomal protection protein Tet(M) | BLASTX | 98.28 | 100.00 | WP_024052575.1 |
| APEEDJOO_4 | 10277 | 10921 | catA | type A-8 chloramphenicol O-acetyltransferase | BLASTX | 97.21 | 100.00 | WP_002352254.1 |
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 |
|---|---|---|---|---|---|---|---|---|
| APEEDJOO_1 | 485284 | 484577 | WalR | 3.90e-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. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| APEEDJOO_1 | 0.0 | 1.0 | 0.0 |
| APEEDJOO_2 | 1.0 | 0.0 | 1.0 |
| APEEDJOO_3 | 1.0 | 0.0 | 1.0 |
| APEEDJOO_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 |
|---|---|---|---|---|---|
| APEEDJOO_1 | 1469239 | 1496435 | True | Siphoviridae | VOG0275, VOG0275, VOG4615, VOG0054, VOG1637, VOG5008, VOG4856, VOG4190, VOG3462, VOG0801, VOG8263, VOG5852, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG4553, VOG4573, VOG4556, VOG1886, VOG4581, VOG4841, VOG7894 |
| APEEDJOO_1 | 1505088 | 1515394 | False | Myoviridae | VOG4606, VOG4577, VOG6545, VOG0322, VOG0327, VOG5014, VOG1024, VOG4548, VOG10109, VOG2228 |
Phigaro v2.4.0 (Database: Jan. 2024 release)