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. |
|---|---|---|---|---|---|---|---|---|
| JLJPFGIH_1 | 2768954 | 2769808 | aadK | ARO:3002627 | aadK | 97.54 | 100.00 | AL009126.1 |
| JLJPFGIH_1 | 2749763 | 2750965 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
| JLJPFGIH_1 | 2521129 | 2522298 | bmr | ARO:3003007 | bmr | 99.23 | 100.00 | M33768.1 |
| JLJPFGIH_1 | 1351347 | 1351664 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| JLJPFGIH_1 | 1351009 | 1351347 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| JLJPFGIH_1 | 887942 | 890512 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 100.00 | 100.00 | AL009126.3 |
| JLJPFGIH_1 | 595039 | 596682 | vmlR | ARO:3004476 | vmlR | 98.90 | 100.00 | NC_000964.3 |
| JLJPFGIH_1 | 337326 | 337919 | tmrB | ARO:3003059 | tmrB | 98.98 | 100.00 | AL009126.3 |
| JLJPFGIH_1 | 286765 | 288198 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.00 | JYFL01000006.1 |
| JLJPFGIH_1 | 273948 | 274868 | mphK | ARO:3004541 | mphK | 99.02 | 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. |
|---|---|---|---|---|---|---|---|
| JLJPFGIH_1 | 4225347 | 4226723 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 98.77 | 100.00 | D12567 |
| JLJPFGIH_1 | 2768956 | 2769808 | aadK | Streptomycin | 98.12 | 99.77 | M26879 |
| JLJPFGIH_1 | 273948 | 274868 | mph(K) | Spiramycin, Telithromycin | 98.05 | 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. |
|---|---|---|---|---|---|---|---|---|
| JLJPFGIH_1 | 273948 | 274865 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.02 | 100.00 | WP_003246254.1 |
| JLJPFGIH_1 | 595042 | 596682 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.90 | 100.00 | WP_003234144.1 |
| JLJPFGIH_1 | 4225350 | 4226723 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.69 | 100.00 | WP_063856081.1 |
| JLJPFGIH_1 | 2768957 | 2769808 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.54 | 100.00 | WP_003229862.1 |
| JLJPFGIH_1 | 4222826 | 4223344 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| JLJPFGIH_1 | 2180244 | 2182841 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| JLJPFGIH_1 | 2321973 | 2322614 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 100.00 | 100.00 | NP_390062 |
| JLJPFGIH_1 | 3747690 | 3748871 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| JLJPFGIH_1 | 3322742 | 3329878 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.62 | 100.00 | NP_391076 |
| JLJPFGIH_1 | 3333734 | 3334519 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| JLJPFGIH_1 | 3747226 | 3747675 | capC | 0.0 | Capsule | Immune modulation | 99.33 | 100.00 | NP_391470 |
| JLJPFGIH_1 | 3746065 | 3747207 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| JLJPFGIH_1 | 3329898 | 3330836 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.25 | 100.00 | NP_391077 |
| JLJPFGIH_1 | 3332512 | 3333708 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.17 | 100.00 | NP_391079 |
| JLJPFGIH_1 | 2130163 | 2131926 | dep/capD | 0.0 | Capsule | Immune modulation | 99.15 | 100.00 | NP_389723 |
| JLJPFGIH_1 | 3330864 | 3332483 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.07 | 100.00 | NP_391078 |
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 |
|---|---|---|---|---|---|---|---|---|
| JLJPFGIH_1 | 132398 | 133534 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| JLJPFGIH_1 | 18665 | 19534 | pdxS | 3.16e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| JLJPFGIH_1 | 1661274 | 1662050 | CodY | 3.45e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| JLJPFGIH_1 | 3586336 | 3586905 | ClpP | 2.56e-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. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| JLJPFGIH_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 |
|---|---|---|---|---|---|
| JLJPFGIH_1 | 1293628 | 1321524 | 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 |
| JLJPFGIH_1 | 1863442 | 1896689 | False | Siphoviridae | VOG8537, VOG4574, VOG7900, VOG9712, VOG5042, VOG3389, VOG4910, VOG9312, VOG9667, VOG0275, VOG8610, VOG4705, VOG7718, VOG5534, VOG6940, VOG9713, VOG9219, VOG5495, VOG6036, VOG9867, VOG7134, VOG10940, VOG5721, VOG5779, VOG5722 |
| JLJPFGIH_1 | 1939196 | 1945804 | False | Unknown | VOG4908, VOG6211, VOG0322, VOG7476, VOG0025 |
| JLJPFGIH_1 | 2210563 | 2231969 | False | Siphoviridae | VOG0136, VOG5221, VOG4705, VOG3390, VOG4612, VOG4626, VOG4619, VOG0801, VOG6163, VOG0541, VOG4586, VOG0704, VOG5660, VOG4589, VOG0204, VOG4553, VOG4568, VOG4556, VOG4544, VOG0519, VOG4841 |
| JLJPFGIH_1 | 2698188 | 2717293 | False | Myoviridae | VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG10095, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685 |
Phigaro v2.4.0 (Database: Jan. 2024 release)