Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 8 | 17.55 |
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. |
|---|---|---|---|---|---|---|---|---|
| EMPJECPA_11 | 198566 | 198904 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| EMPJECPA_11 | 198249 | 198566 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| EMPJECPA_6 | 109572 | 110492 | mphK | ARO:3004541 | mphK | 97.71 | 100.00 | CP010314.1 |
| EMPJECPA_6 | 96240 | 97679 | lmrB | ARO:3002813 | lmrB | 99.16 | 100.42 | JYFL01000006.1 |
| EMPJECPA_16 | 83714 | 84883 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| EMPJECPA_4 | 56365 | 58011 | vmlR | ARO:3004476 | vmlR | 99.27 | 100.18 | NC_000964.3 |
| EMPJECPA_6 | 46592 | 47185 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| EMPJECPA_56 | 27316 | 29886 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.53 | 100.00 | AL009126.3 |
| EMPJECPA_26 | 10021 | 10875 | aadK | ARO:3002627 | aadK | 97.89 | 100.00 | AL009126.1 |
| EMPJECPA_51 | 9309 | 10511 | blt | ARO:3003006 | blt | 99.00 | 100.00 | L32599.1 |
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. |
|---|---|---|---|---|---|---|---|
| EMPJECPA_26 | 10021 | 10875 | aadK | Streptomycin | 98.48 | 100.00 | M26879 |
| EMPJECPA_6 | 109572 | 110492 | 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. |
|---|---|---|---|---|---|---|---|---|
| EMPJECPA_4 | 56368 | 58011 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 99.27 | 100.00 | WP_003234144.1 |
| EMPJECPA_26 | 10021 | 10872 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.89 | 100.00 | WP_003229862.1 |
| EMPJECPA_6 | 109575 | 110492 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.71 | 100.00 | WP_003246254.1 |
| EMPJECPA_12 | 38164 | 38682 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 91.91 | 100.00 | WP_003242546.1 |
| EMPJECPA_21 | 58736 | 60832 | rphC | rifamycin-inactivating phosphotransferase RphC | PARTIAL_CONTIG_ENDX | 80.11 | 80.76 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| EMPJECPA_59 | 1232 | 1873 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.84 | 100.00 | NP_390062 |
| EMPJECPA_44 | 14402 | 15583 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| EMPJECPA_2 | 112769 | 113554 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.49 | 100.00 | NP_391080 |
| EMPJECPA_2 | 111547 | 112743 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.25 | 100.00 | NP_391079 |
| EMPJECPA_2 | 108933 | 109871 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.15 | 100.00 | NP_391077 |
| EMPJECPA_21 | 8229 | 9992 | dep/capD | 0.0 | Capsule | Immune modulation | 98.98 | 100.00 | NP_389723 |
| EMPJECPA_44 | 16066 | 17208 | capA | 0.0 | Capsule | Immune modulation | 98.86 | 100.00 | NP_391469 |
| EMPJECPA_44 | 15598 | 16047 | capC | 0.0 | Capsule | Immune modulation | 98.67 | 100.00 | NP_391470 |
| EMPJECPA_2 | 101777 | 108913 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.53 | 100.00 | NP_391076 |
| EMPJECPA_2 | 109899 | 111518 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 96.73 | 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 |
|---|---|---|---|---|---|---|---|---|
| EMPJECPA_41 | 27991 | 26855 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| EMPJECPA_46 | 4299 | 5168 | pdxS | 4.64e-152 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| EMPJECPA_47 | 17561 | 16785 | CodY | 1.03e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| EMPJECPA_1 | 111410 | 111979 | ClpP | 1.46e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| EMPJECPA_19 | 38795 | 38403 | spxA1 | 5.72e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| EMPJECPA_5 | 20547 | 20789 | SpoVG | 4.74e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| EMPJECPA_4 | 8753 | 8950 | CspA | 3.75e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| EMPJECPA_48 | 17603 | 17409 | CspD | 4.93e-29 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| EMPJECPA_48 | 17603 | 17406 | CspB | 1.02e-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 |
|---|---|---|---|
| EMPJECPA_1 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_2 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_3 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_4 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_5 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_6 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_7 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_8 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_10 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_11 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_12 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_13 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_14 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_15 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_16 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_17 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_18 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_19 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_20 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_21 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_22 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_23 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_24 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_26 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_27 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_28 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_29 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_30 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_31 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_32 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_33 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_34 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_35 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_36 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_38 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_39 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_41 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_42 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_43 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_44 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_45 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_46 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_47 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_48 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_49 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_50 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_51 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_54 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_55 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_56 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_57 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_59 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_60 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_61 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_62 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_63 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_65 | 1.0 | 0.0 | 1.0 |
| EMPJECPA_66 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_68 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_69 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_72 | 0.0 | 1.0 | 0.0 |
| EMPJECPA_78 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| EMPJECPA_23 | 5544 | 15467 | False | Siphoviridae | VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG6875, VOG0189, VOG3490, VOG9667 |
| EMPJECPA_42 | 13750 | 31935 | False | Myoviridae | VOG7718, VOG4862, VOG4691, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685 |
Phigaro v2.4.0 (Database: Jan. 2024 release)