Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 8 | 18.25 |
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. |
|---|---|---|---|---|---|---|---|---|
| EGKHHCPB_2 | 531875 | 532213 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| EGKHHCPB_2 | 531558 | 531875 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| EGKHHCPB_3 | 480410 | 481612 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
| EGKHHCPB_3 | 462097 | 462951 | aadK | ARO:3002627 | aadK | 98.24 | 100.00 | AL009126.1 |
| EGKHHCPB_4 | 334340 | 335260 | mphK | ARO:3004541 | mphK | 97.71 | 100.00 | CP010314.1 |
| EGKHHCPB_4 | 321007 | 322446 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.42 | JYFL01000006.1 |
| EGKHHCPB_4 | 271373 | 271966 | tmrB | ARO:3003059 | tmrB | 100.00 | 100.00 | AL009126.3 |
| EGKHHCPB_5 | 177818 | 178987 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| EGKHHCPB_4 | 29202 | 30845 | vmlR | ARO:3004476 | vmlR | 98.54 | 100.00 | NC_000964.3 |
| EGKHHCPB_6 | 27451 | 30021 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.65 | 100.00 | AL009126.3 |
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. |
|---|---|---|---|---|---|---|---|
| EGKHHCPB_1 | 36465 | 37841 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 98.84 | 100.00 | X08034 |
| EGKHHCPB_3 | 462097 | 462949 | aadK | Streptomycin | 98.71 | 99.77 | M26879 |
| EGKHHCPB_4 | 334340 | 335260 | mph(K) | Spiramycin, Telithromycin | 97.72 | 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. |
|---|---|---|---|---|---|---|---|---|
| EGKHHCPB_1 | 36465 | 37838 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.69 | 100.00 | WP_003242953.1 |
| EGKHHCPB_4 | 29202 | 30842 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| EGKHHCPB_3 | 462097 | 462948 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| EGKHHCPB_4 | 334343 | 335260 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.71 | 100.00 | WP_003246254.1 |
| EGKHHCPB_1 | 39797 | 40315 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| EGKHHCPB_7 | 56925 | 59522 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| EGKHHCPB_1 | 918506 | 919444 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.68 | 100.00 | NP_391077 |
| EGKHHCPB_1 | 521517 | 522698 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| EGKHHCPB_7 | 153072 | 153713 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.53 | 100.00 | NP_390062 |
| EGKHHCPB_1 | 916859 | 918478 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.26 | 100.00 | NP_391078 |
| EGKHHCPB_1 | 914823 | 915608 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.24 | 100.00 | NP_391080 |
| EGKHHCPB_1 | 523181 | 524323 | capA | 0.0 | Capsule | Immune modulation | 98.95 | 100.00 | NP_391469 |
| EGKHHCPB_7 | 9984 | 11747 | dep/capD | 0.0 | Capsule | Immune modulation | 98.87 | 100.00 | NP_389723 |
| EGKHHCPB_1 | 915634 | 916830 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.83 | 100.00 | NP_391079 |
| EGKHHCPB_1 | 919464 | 926600 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.82 | 100.00 | NP_391076 |
| EGKHHCPB_1 | 522713 | 523162 | 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 |
|---|---|---|---|---|---|---|---|---|
| EGKHHCPB_11 | 31928 | 33064 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| EGKHHCPB_14 | 4358 | 5227 | pdxS | 1.12e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| EGKHHCPB_2 | 221930 | 221154 | CodY | 7.79e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| EGKHHCPB_1 | 664098 | 663529 | ClpP | 6.19e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| EGKHHCPB_2 | 683770 | 683378 | spxA1 | 6.12e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| EGKHHCPB_2 | 683770 | 683378 | spx | 3.65e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| EGKHHCPB_12 | 20606 | 20848 | SpoVG | 7.52e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| EGKHHCPB_4 | 77573 | 77376 | CspA | 1.88e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| EGKHHCPB_7 | 165638 | 165832 | CspD | 1.09e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
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 |
|---|---|---|---|
| EGKHHCPB_1 | 0.0 | 1.0 | 0.0 |
| EGKHHCPB_2 | 0.0 | 1.0 | 0.0 |
| EGKHHCPB_3 | 0.0 | 1.0 | 0.0 |
| EGKHHCPB_4 | 0.0 | 1.0 | 0.0 |
| EGKHHCPB_5 | 0.0 | 1.0 | 0.0 |
| EGKHHCPB_6 | 0.0 | 1.0 | 0.0 |
| EGKHHCPB_7 | 0.0 | 1.0 | 0.0 |
| EGKHHCPB_8 | 0.0 | 1.0 | 0.0 |
| EGKHHCPB_9 | 0.0 | 1.0 | 0.0 |
| EGKHHCPB_10 | 1.0 | 0.0 | 1.0 |
| EGKHHCPB_11 | 0.0 | 1.0 | 0.0 |
| EGKHHCPB_12 | 0.0 | 1.0 | 0.0 |
| EGKHHCPB_13 | 0.0 | 1.0 | 0.0 |
| EGKHHCPB_14 | 0.0 | 1.0 | 0.0 |
| EGKHHCPB_15 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| EGKHHCPB_2 | 561690 | 589254 | 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 |
| EGKHHCPB_3 | 498460 | 530589 | False | Myoviridae | VOG4600, VOG1309, VOG11060, VOG0189, VOG4693, VOG4567, VOG4673, VOG7060, VOG0796, VOG9315, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718 |
| EGKHHCPB_3 | 555516 | 587645 | False | Myoviridae | VOG4600, VOG1309, VOG11060, VOG0189, VOG4693, VOG4567, VOG4673, VOG7060, VOG0796, VOG9315, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718 |
| EGKHHCPB_6 | 275731 | 300352 | False | Myoviridae | VOG2703, VOG4574, VOG0136, VOG0753, VOG5008, VOG4705, VOG3390, VOG7718, VOG4845, VOG4691, VOG4550, VOG0573, VOG1348, VOG1433, VOG1956, VOG6163, VOG1350, VOG4699, VOG1352, VOG1883, VOG1881, VOG1353, VOG4623, VOG4564, VOG0815, VOG4553, VOG4555, VOG0720, VOG0796 |
| EGKHHCPB_6 | 306645 | 315559 | False | Siphoviridae | VOG0189, VOG4566, VOG0186, VOG8233, VOG4603, VOG4552, VOG0650, VOG11075, VOG9667, VOG4602 |
| EGKHHCPB_8 | 30459 | 47717 | False | Unknown | VOG9712, VOG5042, VOG3389, VOG4910, VOG9312, VOG0275, VOG7930, VOG8610, VOG5008, VOG4705 |
| EGKHHCPB_13 | 18743 | 25631 | False | Siphoviridae | VOG4713, VOG4553, VOG4555, VOG0720, VOG5023, VOG0221 |
Phigaro v2.4.0 (Database: Jan. 2024 release)