Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 4 | 16.88 |
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. |
|---|---|---|---|---|---|---|---|---|
| BAMCDBFL_1 | 4191762 | 4192964 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
| BAMCDBFL_1 | 4018539 | 4019708 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| BAMCDBFL_1 | 2889330 | 2889647 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| BAMCDBFL_1 | 2888992 | 2889330 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| BAMCDBFL_1 | 2425884 | 2428454 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| BAMCDBFL_1 | 2134503 | 2136149 | vmlR | ARO:3004476 | vmlR | 98.54 | 100.18 | NC_000964.3 |
| BAMCDBFL_1 | 1893467 | 1894060 | tmrB | ARO:3003059 | tmrB | 97.46 | 100.00 | AL009126.3 |
| BAMCDBFL_1 | 1842946 | 1844379 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.00 | JYFL01000006.1 |
| BAMCDBFL_1 | 1830132 | 1831052 | mphK | ARO:3004541 | mphK | 97.71 | 100.00 | CP010314.1 |
| BAMCDBFL_1 | 11053 | 11907 | aadK | ARO:3002627 | aadK | 98.94 | 100.00 | AL009126.1 |
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. |
|---|---|---|---|---|---|---|---|
| BAMCDBFL_1 | 1529689 | 1531065 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 100.00 | 100.00 | X08034 |
| BAMCDBFL_1 | 11055 | 11907 | aadK | Streptomycin | 98.83 | 99.77 | M26879 |
| BAMCDBFL_1 | 1830132 | 1831052 | mph(K) | Spiramycin, Telithromycin | 97.72 | 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. |
|---|---|---|---|---|---|---|---|---|
| BAMCDBFL_1 | 1529692 | 1531065 | tet(L) | tetracycline efflux MFS transporter Tet(L) | EXACTX | 100.00 | 100.00 | WP_003242953.1 |
| BAMCDBFL_1 | 11056 | 11907 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.94 | 100.00 | WP_003229862.1 |
| BAMCDBFL_1 | 2134506 | 2136149 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| BAMCDBFL_1 | 1830132 | 1831049 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.71 | 100.00 | WP_003246254.1 |
| BAMCDBFL_1 | 1527218 | 1527736 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| BAMCDBFL_1 | 3714831 | 3717428 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.40 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| BAMCDBFL_1 | 3819370 | 3820011 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 100.00 | 100.00 | NP_390062 |
| BAMCDBFL_1 | 1033248 | 1034429 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| BAMCDBFL_1 | 1031623 | 1032765 | capA | 0.0 | Capsule | Immune modulation | 99.39 | 100.00 | NP_391469 |
| BAMCDBFL_1 | 615168 | 616106 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391077 |
| BAMCDBFL_1 | 1032784 | 1033233 | capC | 0.0 | Capsule | Immune modulation | 99.33 | 100.00 | NP_391470 |
| BAMCDBFL_1 | 616134 | 617753 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.26 | 100.00 | NP_391078 |
| BAMCDBFL_1 | 619004 | 619789 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.24 | 100.00 | NP_391080 |
| BAMCDBFL_1 | 3664750 | 3666513 | dep/capD | 0.0 | Capsule | Immune modulation | 99.15 | 100.00 | NP_389723 |
| BAMCDBFL_1 | 608012 | 615148 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.06 | 100.00 | NP_391076 |
| BAMCDBFL_1 | 617782 | 618978 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.91 | 100.00 | NP_391079 |
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 |
|---|---|---|---|---|---|---|---|---|
| BAMCDBFL_1 | 1688613 | 1689749 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| BAMCDBFL_1 | 1574879 | 1575748 | pdxS | 3.12e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| BAMCDBFL_1 | 3199478 | 3200254 | CodY | 3.41e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| BAMCDBFL_1 | 871912 | 872481 | ClpP | 8.55e-98 | part of proteolytic complex | 80.53 | 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. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| BAMCDBFL_1 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| BAMCDBFL_1 | 191317 | 216889 | False | Myoviridae | VOG4574, VOG0136, VOG0753, VOG4705, VOG3390, VOG7718, VOG4845, VOG4691, VOG4550, VOG0573, VOG1348, VOG1433, VOG1956, VOG6163, VOG4699, VOG1352, VOG1883, VOG1881, VOG1353, VOG4623, VOG4564, VOG4553, VOG4555, VOG0720, VOG10227, VOG0796 |
| BAMCDBFL_1 | 2831610 | 2859183 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG3390, VOG4705 |
| BAMCDBFL_1 | 3404021 | 3415938 | False | Unknown | VOG9712, VOG5042, VOG3389, VOG4910 |
Phigaro v2.4.0 (Database: Jan. 2024 release)