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. |
|---|---|---|---|---|---|---|---|---|
| OKPDGHDC_1 | 2408870 | 2409790 | mphK | ARO:3004541 | mphK | 98.04 | 100.00 | CP010314.1 |
| OKPDGHDC_1 | 2395543 | 2396976 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.00 | JYFL01000006.1 |
| OKPDGHDC_1 | 2345843 | 2346436 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| OKPDGHDC_1 | 2100384 | 2102027 | vmlR | ARO:3004476 | vmlR | 98.54 | 100.00 | NC_000964.3 |
| OKPDGHDC_1 | 1792279 | 1794849 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 100.00 | 100.00 | AL009126.3 |
| OKPDGHDC_1 | 1333152 | 1333490 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| OKPDGHDC_1 | 1332835 | 1333152 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| OKPDGHDC_1 | 255988 | 257157 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| OKPDGHDC_1 | 30190 | 31392 | blt | ARO:3003006 | blt | 100.00 | 100.00 | L32599.1 |
| OKPDGHDC_1 | 11801 | 12655 | aadK | ARO:3002627 | aadK | 97.89 | 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. |
|---|---|---|---|---|---|---|---|
| OKPDGHDC_1 | 2710068 | 2711444 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 100.00 | 100.00 | D12567 |
| OKPDGHDC_1 | 11801 | 12653 | aadK | Streptomycin | 98.59 | 99.77 | M26879 |
| OKPDGHDC_1 | 2408870 | 2409790 | 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. |
|---|---|---|---|---|---|---|---|---|
| OKPDGHDC_1 | 2710068 | 2711441 | tet(L) | tetracycline efflux MFS transporter Tet(L) | EXACTX | 100.00 | 100.00 | WP_063856081.1 |
| OKPDGHDC_1 | 2100384 | 2102024 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| OKPDGHDC_1 | 2408873 | 2409790 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.04 | 100.00 | WP_003246254.1 |
| OKPDGHDC_1 | 11801 | 12652 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.89 | 100.00 | WP_003229862.1 |
| OKPDGHDC_1 | 2713424 | 2713942 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| OKPDGHDC_1 | 552139 | 554736 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.60 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| OKPDGHDC_1 | 3598812 | 3599750 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.68 | 100.00 | NP_391077 |
| OKPDGHDC_1 | 3200865 | 3202046 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| OKPDGHDC_1 | 3597165 | 3598784 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.26 | 100.00 | NP_391078 |
| OKPDGHDC_1 | 3595129 | 3595914 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.24 | 100.00 | NP_391080 |
| OKPDGHDC_1 | 457949 | 458590 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.22 | 100.00 | NP_390062 |
| OKPDGHDC_1 | 3599770 | 3606906 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.06 | 100.00 | NP_391076 |
| OKPDGHDC_1 | 3202529 | 3203671 | capA | 0.0 | Capsule | Immune modulation | 98.95 | 100.00 | NP_391469 |
| OKPDGHDC_1 | 3595940 | 3597136 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.91 | 100.00 | NP_391079 |
| OKPDGHDC_1 | 599587 | 601350 | dep/capD | 0.0 | Capsule | Immune modulation | 98.87 | 100.00 | NP_389723 |
| OKPDGHDC_1 | 3202061 | 3202510 | capC | 0.0 | Capsule | Immune modulation | 98.67 | 100.00 | 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 |
|---|---|---|---|---|---|---|---|---|
| OKPDGHDC_1 | 2552443 | 2551307 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| OKPDGHDC_1 | 2666257 | 2665388 | pdxS | 3.11e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| OKPDGHDC_1 | 1022959 | 1022183 | CodY | 3.40e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| OKPDGHDC_1 | 3343455 | 3342886 | ClpP | 2.52e-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 |
|---|---|---|---|
| OKPDGHDC_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 |
|---|---|---|---|---|---|
| OKPDGHDC_1 | 48238 | 78623 | False | Myoviridae | VOG4600, VOG1309, VOG11060, VOG0189, VOG4693, VOG4673, VOG0796, VOG9315, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG10989, VOG4691, VOG4862 |
| OKPDGHDC_1 | 1362971 | 1389454 | False | Myoviridae | VOG0753, VOG4705, VOG4612, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
| OKPDGHDC_1 | 4035923 | 4062881 | False | Siphoviridae | VOG6282, VOG4841, VOG4581, VOG1886, VOG3644, VOG4556, VOG4568, VOG4553, VOG5361, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG5852, VOG5910, VOG4545, VOG0801, VOG4619, VOG4660, VOG4612, VOG3390, VOG4705, VOG5008, VOG0641, VOG4574 |
Phigaro v2.4.0 (Database: Jan. 2024 release)