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. |
|---|---|---|---|---|---|---|---|---|
| HIKJKDOL_1 | 3615885 | 3616202 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| HIKJKDOL_1 | 3615547 | 3615885 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| HIKJKDOL_1 | 3154353 | 3156923 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| HIKJKDOL_1 | 2846277 | 2847905 | vmlR | ARO:3004476 | vmlR | 99.08 | 99.09 | NC_000964.3 |
| HIKJKDOL_1 | 2595289 | 2595882 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| HIKJKDOL_1 | 2544764 | 2546197 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.00 | JYFL01000006.1 |
| HIKJKDOL_1 | 2531949 | 2532815 | mphK | ARO:3004541 | mphK | 98.61 | 94.12 | CP010314.1 |
| HIKJKDOL_1 | 735045 | 735899 | aadK | ARO:3002627 | aadK | 98.94 | 100.00 | AL009126.1 |
| HIKJKDOL_1 | 717778 | 718980 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
| HIKJKDOL_1 | 547616 | 548785 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
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. |
|---|---|---|---|---|---|---|---|
| HIKJKDOL_1 | 735047 | 735899 | aadK | Streptomycin | 98.94 | 99.77 | M26879 |
| HIKJKDOL_1 | 2206372 | 2207748 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 98.40 | 100.00 | D12567 |
| HIKJKDOL_1 | 2531949 | 2532869 | 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. |
|---|---|---|---|---|---|---|---|---|
| HIKJKDOL_1 | 2846280 | 2847905 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 99.08 | 98.90 | WP_003234144.1 |
| HIKJKDOL_1 | 735048 | 735899 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.94 | 100.00 | WP_003229862.1 |
| HIKJKDOL_1 | 2206375 | 2207748 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.47 | 100.00 | WP_063856081.1 |
| HIKJKDOL_1 | 2531949 | 2532866 | mphK | macrolide 2'-phosphotransferase MphK | INTERNAL_STOP | 98.04 | 100.00 | WP_003246254.1 |
| HIKJKDOL_1 | 2203842 | 2204360 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 89.60 | 100.00 | WP_003242546.1 |
| HIKJKDOL_1 | 241524 | 244112 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.37 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| HIKJKDOL_1 | 1712825 | 1713967 | capA | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_391469 |
| HIKJKDOL_1 | 1713986 | 1714435 | capC | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_391470 |
| HIKJKDOL_1 | 1307084 | 1307869 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 100.00 | 100.00 | NP_391080 |
| HIKJKDOL_1 | 1296092 | 1303228 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.99 | 100.00 | NP_391076 |
| HIKJKDOL_1 | 1714450 | 1715631 | capB | 0.0 | Capsule | Immune modulation | 99.92 | 100.00 | NP_391471 |
| HIKJKDOL_1 | 1303248 | 1304186 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.89 | 100.00 | NP_391077 |
| HIKJKDOL_1 | 1304214 | 1305833 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.57 | 100.00 | NP_391078 |
| HIKJKDOL_1 | 1305862 | 1307058 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.50 | 100.00 | NP_391079 |
| HIKJKDOL_1 | 344826 | 345467 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.22 | 100.00 | NP_390062 |
| HIKJKDOL_1 | 187125 | 188888 | dep/capD | 0.0 | Capsule | Immune modulation | 98.87 | 100.00 | NP_389723 |
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 |
|---|---|---|---|---|---|---|---|---|
| HIKJKDOL_1 | 2391421 | 2392557 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| HIKJKDOL_1 | 2277680 | 2278549 | pdxS | 3.04e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| HIKJKDOL_1 | 3925899 | 3926675 | CodY | 3.32e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| HIKJKDOL_1 | 1559308 | 1559877 | ClpP | 2.46e-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 |
|---|---|---|---|
| HIKJKDOL_1 | 0.0 | 1.0 | 0.0 |
| HIKJKDOL_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 |
|---|---|---|---|---|---|
| HIKJKDOL_1 | 19638 | 21491 | False | Unknown | VOG9667, VOG9667, VOG4552 |
| HIKJKDOL_1 | 28909 | 55418 | False | Siphoviridae | VOG0198, VOG7466, VOG4841, VOG4581, VOG1886, VOG4556, VOG4568, VOG4553, VOG5361, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG5910, VOG6163, VOG0801, VOG4619, VOG4660, VOG4612, VOG3390, VOG4705, VOG5008 |
| HIKJKDOL_1 | 3559578 | 3586060 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG4612, VOG4705 |
| HIKJKDOL_2 | 2984 | 24045 | False | Siphoviridae | VOG5819, VOG1886, VOG4556, VOG4568, VOG4553, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG5852, VOG6163, VOG4605, VOG4599, VOG9244, VOG10944, VOG1024 |
| HIKJKDOL_2 | 42551 | 61651 | False | Siphoviridae | VOG0052, VOG11080, VOG2352, VOG0397, VOG1198, VOG4561, VOG4714, VOG2352, VOG3851, VOG2725, VOG4549, VOG5292, VOG1574, VOG0918, VOG4551 |
Phigaro v2.4.0 (Database: Jan. 2024 release)