Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 11 | 10 | 8 | 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. |
|---|---|---|---|---|---|---|---|---|
| AJIPKHMC_12 | 636772 | 637110 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| AJIPKHMC_12 | 636455 | 636772 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| AJIPKHMC_1 | 509033 | 510235 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
| AJIPKHMC_1 | 492110 | 492964 | aadK | ARO:3002627 | aadK | 98.94 | 100.00 | AL009126.1 |
| AJIPKHMC_41 | 278462 | 281032 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| AJIPKHMC_43 | 151267 | 151860 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| AJIPKHMC_43 | 101538 | 102977 | lmrB | ARO:3002813 | lmrB | 99.79 | 100.42 | JYFL01000006.1 |
| AJIPKHMC_43 | 88725 | 89645 | mphK | ARO:3004541 | mphK | 98.37 | 100.00 | CP010314.1 |
| AJIPKHMC_42 | 28997 | 30640 | vmlR | ARO:3004476 | vmlR | 96.71 | 100.00 | 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. |
|---|---|---|---|---|---|---|---|
| AJIPKHMC_1 | 492110 | 492962 | aadK | Streptomycin | 98.83 | 99.77 | M26879 |
| AJIPKHMC_43 | 88725 | 89645 | mph(K) | Spiramycin, Telithromycin | 98.15 | 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. |
|---|---|---|---|---|---|---|---|---|
| AJIPKHMC_1 | 492110 | 492961 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.94 | 100.00 | WP_003229862.1 |
| AJIPKHMC_43 | 88725 | 89642 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.37 | 100.00 | WP_003246254.1 |
| AJIPKHMC_42 | 28997 | 30637 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 96.71 | 100.00 | WP_003234144.1 |
| AJIPKHMC_34 | 314155 | 314673 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.75 | 100.00 | WP_003242546.1 |
| AJIPKHMC_44 | 125577 | 128174 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.94 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| AJIPKHMC_23 | 103536 | 104321 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.75 | 100.00 | NP_391080 |
| AJIPKHMC_2 | 70906 | 72087 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| AJIPKHMC_23 | 99700 | 100638 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.25 | 100.00 | NP_391077 |
| AJIPKHMC_2 | 72570 | 73712 | capA | 0.0 | Capsule | Immune modulation | 99.12 | 100.00 | NP_391469 |
| AJIPKHMC_2 | 72102 | 72551 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| AJIPKHMC_23 | 102314 | 103510 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.08 | 100.00 | NP_391079 |
| AJIPKHMC_44 | 175830 | 177593 | dep/capD | 0.0 | Capsule | Immune modulation | 99.04 | 100.00 | NP_389723 |
| AJIPKHMC_44 | 29878 | 30519 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 98.91 | 100.00 | NP_390062 |
| AJIPKHMC_23 | 92544 | 99680 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.60 | 100.00 | NP_391076 |
| AJIPKHMC_23 | 100666 | 102285 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.35 | 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 |
|---|---|---|---|---|---|---|---|---|
| AJIPKHMC_4 | 27921 | 26785 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| AJIPKHMC_9 | 11181 | 10312 | pdxS | 1.11e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| AJIPKHMC_12 | 324918 | 324142 | CodY | 6.11e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| AJIPKHMC_23 | 352714 | 353283 | ClpP | 3.07e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| AJIPKHMC_40 | 39638 | 39246 | spxA1 | 2.01e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| AJIPKHMC_40 | 39638 | 39246 | spx | 1.20e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| AJIPKHMC_5 | 34579 | 34337 | SpoVG | 7.49e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| AJIPKHMC_42 | 80202 | 80005 | CspA | 9.49e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| AJIPKHMC_44 | 18657 | 18463 | CspD | 4.79e-28 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| AJIPKHMC_44 | 18657 | 18460 | CspB | 9.93e-28 | cold shock protein | 80.30 | 100.00 | CAD00094 |
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 |
|---|---|---|---|
| AJIPKHMC_1 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_2 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_3 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_4 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_5 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_6 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_7 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_8 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_9 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_10 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_11 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_12 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_13 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_14 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_15 | 1.0 | 0.0 | 1.0 |
| AJIPKHMC_23 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_34 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_40 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_41 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_42 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_43 | 0.0 | 1.0 | 0.0 |
| AJIPKHMC_44 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| AJIPKHMC_1 | 278946 | 282558 | False | Unknown | VOG0186, VOG0189, VOG0044 |
| AJIPKHMC_1 | 289484 | 314352 | False | Myoviridae | VOG0720, VOG4555, VOG4553, VOG4564, VOG4623, VOG1353, VOG1881, VOG1883, VOG1352, VOG4699, VOG6163, VOG1956, VOG1433, VOG1348, VOG0573, VOG4550, VOG4691, VOG4845, VOG7718, VOG3390, VOG4705, VOG0753, VOG0136, VOG4574, VOG6116 |
| AJIPKHMC_1 | 899578 | 906215 | False | Siphoviridae | VOG3699, VOG0221, VOG5023, VOG0720, VOG4555 |
| AJIPKHMC_12 | 39806 | 52825 | False | Myoviridae / Siphoviridae | VOG4724, VOG1198, VOG0918, VOG4551, VOG0025, VOG7476, VOG0322, VOG6211 |
| AJIPKHMC_12 | 91938 | 102808 | False | Myoviridae / Siphoviridae | VOG5779, VOG5721, VOG10940, VOG7134, VOG6036, VOG5495, VOG9219, VOG9713, VOG6940, VOG5534 |
| AJIPKHMC_12 | 103099 | 119998 | False | Unknown | VOG7718, VOG4705, VOG8610, VOG7930, VOG0275, VOG9312, VOG4910, VOG3389, VOG5042 |
| AJIPKHMC_12 | 666599 | 694586 | False | Myoviridae | VOG0753, VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
Phigaro v2.4.0 (Database: Jan. 2024 release)