Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 5 | 10 | 4 | 11.87 |
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. |
|---|---|---|---|---|---|---|---|---|
| GEGBAPFK_1 | 3577361 | 3579931 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.65 | 100.00 | AL009126.3 |
| GEGBAPFK_1 | 3105182 | 3105520 | ykkC | ARO:3003063 | ykkC | 99.11 | 100.00 | AL009126.1 |
| GEGBAPFK_1 | 3104865 | 3105182 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| GEGBAPFK_1 | 2191780 | 2192949 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
| GEGBAPFK_1 | 211384 | 212304 | mphK | ARO:3004541 | mphK | 97.39 | 100.00 | CP010314.1 |
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. |
|---|---|---|---|---|---|---|---|
| GEGBAPFK_1 | 211384 | 212304 | mph(K) | Spiramycin, Telithromycin | 97.83 | 100.00 | NC_000964 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| GEGBAPFK_1 | 211387 | 212304 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.39 | 100.00 | WP_003246254.1 |
| GEGBAPFK_1 | 35843 | 36922 | vmlR | ABC-F type ribosomal protection protein VmlR | INTERNAL_STOP | 93.33 | 65.81 | WP_003234144.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| GEGBAPFK_1 | 1409353 | 1410972 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.81 | 100.00 | NP_391078 |
| GEGBAPFK_1 | 1411000 | 1411938 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.79 | 100.00 | NP_391077 |
| GEGBAPFK_1 | 2409613 | 2410254 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.69 | 100.00 | NP_390062 |
| GEGBAPFK_1 | 1407317 | 1408102 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.62 | 100.00 | NP_391080 |
| GEGBAPFK_1 | 1000299 | 1001480 | capB | 0.0 | Capsule | Immune modulation | 99.58 | 100.00 | NP_391471 |
| GEGBAPFK_1 | 1408128 | 1409324 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.50 | 100.00 | NP_391079 |
| GEGBAPFK_1 | 2573420 | 2575183 | dep/capD | 0.0 | Capsule | Immune modulation | 99.21 | 100.00 | NP_389723 |
| GEGBAPFK_1 | 1411957 | 1419093 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.56 | 100.00 | NP_391076 |
| GEGBAPFK_1 | 1001495 | 1001944 | capC | 0.0 | Capsule | Immune modulation | 98.44 | 100.00 | NP_391470 |
| GEGBAPFK_1 | 1001963 | 1003087 | capA | 0.0 | Capsule | Immune modulation | 97.11 | 99.83 | NP_391469 |
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 |
|---|---|---|---|---|---|---|---|---|
| GEGBAPFK_1 | 353327 | 352191 | tufA | 0.0 | elongation factor Tu | 84.70 | 95.69 | AHM69299 |
| GEGBAPFK_1 | 467210 | 466341 | pdxS | 4.13e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| GEGBAPFK_1 | 2778808 | 2778032 | CodY | 2.78e-123 | nutrient-responsive regulator | 80.69 | 100.00 | ACJ80679 |
| GEGBAPFK_1 | 1156336 | 1155767 | ClpP | 2.41e-98 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)
Plasmid
PlasmidFinder
| Query ID | Begin | End | Plasmid | Query / Template | Identity | Accession no. |
|---|---|---|---|---|---|---|
| GEGBAPFK_3 | 7641 | 7828 | Col(SD853) | 188 / 194 | 82.98 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| GEGBAPFK_1 | 0.0 | 1.0 | 0.0 |
| GEGBAPFK_2 | 1.0 | 0.0 | 1.0 |
| GEGBAPFK_3 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| GEGBAPFK_1 | 2112971 | 2116462 | False | Siphoviridae | VOG5753, VOG10937, VOG5385 |
| GEGBAPFK_1 | 2140120 | 2166885 | False | Siphoviridae | VOG9438, VOG4841, VOG4581, VOG4544, VOG4556, VOG4573, VOG4553, VOG5601, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG4545, VOG0801, VOG4619, VOG4626, VOG4612, VOG6243, VOG4705, VOG5221, VOG4574, VOG0602, VOG7508, VOG6116, VOG0705, VOG7531 |
| GEGBAPFK_1 | 3135353 | 3160703 | False | Myoviridae | VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490 |
| GEGBAPFK_1 | 3956749 | 3974612 | False | Siphoviridae | VOG0641, VOG4599, VOG4605, VOG9745, VOG0701, VOG10044, VOG0698, VOG0697, VOG0696, VOG0695, VOG2621, VOG4572, VOG9317, VOG0692, VOG0691, VOG10227, VOG0796, VOG0198 |
| GEGBAPFK_1 | 3981997 | 3989422 | False | Siphoviridae | VOG4566, VOG1309, VOG4600, VOG4552, VOG0650, VOG9667, VOG9667, VOG4662 |
Phigaro v2.4.0 (Database: Jan. 2024 release)