Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 5 | 17.15 |
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. |
|---|---|---|---|---|---|---|---|---|
| KPKELPHG_1 | 2060438 | 2061292 | aadK | ARO:3002627 | aadK | 99.65 | 100.00 | AL009126.1 |
| KPKELPHG_1 | 2041733 | 2042935 | blt | ARO:3003006 | blt | 100.00 | 100.00 | L32599.1 |
| KPKELPHG_1 | 1838798 | 1839967 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| KPKELPHG_1 | 722812 | 723129 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| KPKELPHG_1 | 722474 | 722812 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| KPKELPHG_1 | 263575 | 266145 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| KPKELPHG_6 | 155489 | 156082 | tmrB | ARO:3003059 | tmrB | 96.95 | 100.00 | AL009126.3 |
| KPKELPHG_6 | 104995 | 106434 | lmrB | ARO:3002813 | lmrB | 99.16 | 100.42 | JYFL01000006.1 |
| KPKELPHG_6 | 92180 | 93100 | mphK | ARO:3004541 | mphK | 98.69 | 100.00 | CP010314.1 |
| KPKELPHG_5 | 29055 | 30701 | vmlR | ARO:3004476 | vmlR | 98.91 | 100.18 | NC_000964.3 |
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. |
|---|---|---|---|---|---|---|---|
| KPKELPHG_1 | 2060438 | 2061292 | aadK | Streptomycin | 99.88 | 100.00 | M26879 |
| KPKELPHG_6 | 92180 | 93100 | mph(K) | Spiramycin, Telithromycin | 99.13 | 100.00 | NC_000964 |
| KPKELPHG_1 | 3517100 | 3518476 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 98.40 | 100.00 | D12567 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| KPKELPHG_1 | 2060441 | 2061292 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 99.65 | 100.00 | WP_003229862.1 |
| KPKELPHG_5 | 29055 | 30698 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.91 | 100.00 | WP_003234144.1 |
| KPKELPHG_6 | 92180 | 93097 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.69 | 100.00 | WP_003246254.1 |
| KPKELPHG_1 | 3517103 | 3518476 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.25 | 100.00 | WP_063856081.1 |
| KPKELPHG_1 | 3514723 | 3515241 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 94.22 | 100.00 | WP_003242546.1 |
| KPKELPHG_1 | 1529127 | 1531721 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.03 | 99.88 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| KPKELPHG_1 | 3029238 | 3029687 | capC | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_391470 |
| KPKELPHG_1 | 1482445 | 1484208 | dep/capD | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_389723 |
| KPKELPHG_1 | 2616307 | 2617092 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 100.00 | 100.00 | NP_391080 |
| KPKELPHG_1 | 1638675 | 1639316 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.84 | 100.00 | NP_390062 |
| KPKELPHG_1 | 3029702 | 3030883 | capB | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | NP_391471 |
| KPKELPHG_1 | 2615085 | 2616281 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.67 | 100.00 | NP_391079 |
| KPKELPHG_1 | 2605315 | 2612451 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.44 | 100.00 | NP_391076 |
| KPKELPHG_1 | 3028077 | 3029219 | capA | 0.0 | Capsule | Immune modulation | 99.12 | 100.00 | NP_391469 |
| KPKELPHG_1 | 2613437 | 2615056 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.39 | 100.00 | NP_391078 |
| KPKELPHG_1 | 2612471 | 2613409 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.30 | 100.00 | NP_391077 |
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 |
|---|---|---|---|---|---|---|---|---|
| KPKELPHG_7 | 31654 | 32790 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| KPKELPHG_1 | 3562311 | 3563180 | pdxS | 2.70e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| KPKELPHG_1 | 1036068 | 1036844 | CodY | 2.95e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| KPKELPHG_1 | 2883457 | 2884026 | ClpP | 2.19e-98 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| KPKELPHG_5 | 78705 | 78508 | CspA | 9.44e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
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 |
|---|---|---|---|
| KPKELPHG_1 | 0.0 | 1.0 | 0.0 |
| KPKELPHG_5 | 0.0 | 1.0 | 0.0 |
| KPKELPHG_6 | 0.0 | 1.0 | 0.0 |
| KPKELPHG_7 | 0.0 | 1.0 | 0.0 |
| KPKELPHG_8 | 0.0 | 1.0 | 0.0 |
| KPKELPHG_11 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| KPKELPHG_1 | 667338 | 693223 | 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, VOG0753 |
| KPKELPHG_1 | 1234791 | 1255645 | False | Siphoviridae | VOG4660, VOG9712, VOG5042, VOG3389, VOG4910, VOG9312, VOG0275, VOG7930, VOG8610, VOG5008, VOG4705, VOG3390 |
Phigaro v2.4.0 (Database: Jan. 2024 release)