Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 2 | 4 | 4.90 |
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. |
|---|---|---|---|---|---|---|---|---|
| GAJDFOMF_1 | 2354352 | 2355401 | clbA | ARO:3002814 | clbA | 99.71 | 100.00 | CP006845.1 |
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. |
|---|---|---|---|---|---|---|---|
| GAJDFOMF_1 | 2354352 | 2355387 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 88.90 | 98.67 | KR610408 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| GAJDFOMF_1 | 2354352 | 2355398 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 99.71 | 100.00 | WP_012116915.1 |
| GAJDFOMF_1 | 3637230 | 3639824 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.00 | 100.00 | WP_087347987.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| GAJDFOMF_1 | 1326135 | 1327316 | capB | 0.0 | Capsule | Immune modulation | 81.96 | 99.66 | NP_391471 |
| GAJDFOMF_1 | 1325671 | 1326120 | capC | 6.94e-117 | Capsule | Immune modulation | 84.03 | 99.78 | NP_391470 |
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 |
|---|---|---|---|---|---|---|---|---|
| GAJDFOMF_1 | 1946345 | 1947481 | tufA | 0.0 | elongation factor Tu | 86.81 | 95.69 | AHM69299 |
| GAJDFOMF_1 | 1831442 | 1832311 | pdxS | 1.01e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| GAJDFOMF_1 | 3435041 | 3435817 | CodY | 4.80e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| GAJDFOMF_1 | 961293 | 960421 | lipA (SAUSA300_0829) | 8.86e-162 | lipoic acid synthetase | 80.82 | 95.41 | ABD22039 |
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 |
|---|---|---|---|
| GAJDFOMF_1 | 0.0 | 1.0 | 0.0 |
| GAJDFOMF_2 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| GAJDFOMF_1 | 1602 | 7563 | False | Siphoviridae | VOG0539, VOG4589, VOG5361, VOG4553, VOG4568, VOG4556, VOG4556, VOG4556, VOG1886 |
| GAJDFOMF_1 | 3029570 | 3056367 | False | Myoviridae | VOG9667, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG10055, VOG3890, VOG3891, VOG3892, VOG4545, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG4612, VOG3390, VOG4705, VOG0753 |
| GAJDFOMF_1 | 3816563 | 3844538 | False | Siphoviridae | VOG0641, VOG7896, VOG3390, VOG4612, VOG4660, VOG4772, VOG0801, VOG5910, VOG0541, VOG4586, VOG0704, VOG0539, VOG1266, VOG0204, VOG10223, VOG4553, VOG4568, VOG4556, VOG3607, VOG1886, VOG4581, VOG0713, VOG4841, VOG0275, VOG0198, VOG8445, VOG1137 |
| GAJDFOMF_1 | 3846409 | 3848628 | False | Unknown | VOG6931, VOG0189, VOG4566 |
| GAJDFOMF_1 | 4004355 | 4031545 | False | Siphoviridae | VOG3532, VOG10230, VOG0641, VOG7896, VOG3390, VOG4612, VOG4660, VOG4619, VOG0801, VOG6163, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG1886, VOG4581, VOG2703 |
| GAJDFOMF_1 | 4039571 | 4054774 | False | Siphoviridae | VOG1878, VOG4552, VOG0650, VOG9667, VOG9667, VOG0275, VOG3477, VOG8483, VOG3532, VOG10230, VOG0641, VOG7896, VOG3390, VOG4612, VOG4612, VOG4612, VOG4660 |
Phigaro v2.4.0 (Database: Jan. 2024 release)