Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 11 | 10 | 9 | 17.38 |
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. |
|---|---|---|---|---|---|---|---|---|
| JPODMPOM_37 | 62275 | 62592 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| JPODMPOM_37 | 61937 | 62275 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| JPODMPOM_57 | 28953 | 30599 | vmlR | ARO:3004476 | vmlR | 98.18 | 100.18 | NC_000964.3 |
| JPODMPOM_34 | 20920 | 22359 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.42 | JYFL01000006.1 |
| JPODMPOM_42 | 18883 | 19476 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| JPODMPOM_21 | 15260 | 16111 | aadK | ARO:3002627 | aadK | 98.24 | 99.65 | AL009126.1 |
| JPODMPOM_40 | 9347 | 11917 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| JPODMPOM_89 | 653 | 1855 | blt | ARO:3003006 | blt | 99.25 | 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. |
|---|---|---|---|---|---|---|---|
| JPODMPOM_21 | 15260 | 16111 | aadK | Streptomycin | 98.48 | 99.65 | M26879 |
| JPODMPOM_34 | 34252 | 35171 | mph(K) | Spiramycin, Telithromycin | 97.72 | 99.89 | 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. |
|---|---|---|---|---|---|---|---|---|
| JPODMPOM_21 | 15263 | 16111 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| JPODMPOM_57 | 28953 | 30596 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.18 | 100.00 | WP_003234144.1 |
| JPODMPOM_26 | 58280 | 58798 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 93.06 | 100.00 | WP_003242546.1 |
| JPODMPOM_27 | 2778 | 5375 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.48 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| JPODMPOM_18 | 111935 | 113116 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| JPODMPOM_45 | 62381 | 63166 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| JPODMPOM_18 | 113599 | 114741 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| JPODMPOM_27 | 56553 | 58316 | dep/capD | 0.0 | Capsule | Immune modulation | 99.09 | 100.00 | NP_389723 |
| JPODMPOM_45 | 66053 | 66991 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.94 | 100.00 | NP_391077 |
| JPODMPOM_18 | 113131 | 113580 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| JPODMPOM_45 | 63192 | 64388 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.58 | 100.00 | NP_391079 |
| JPODMPOM_45 | 67011 | 74147 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.57 | 100.00 | NP_391076 |
| JPODMPOM_24 | 29032 | 29673 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 97.66 | 100.00 | NP_390062 |
| JPODMPOM_45 | 64406 | 66025 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.28 | 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 |
|---|---|---|---|---|---|---|---|---|
| JPODMPOM_41 | 31731 | 32867 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| JPODMPOM_60 | 4452 | 5321 | pdxS | 1.14e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| JPODMPOM_51 | 116460 | 117236 | CodY | 1.85e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| JPODMPOM_22 | 121799 | 122368 | ClpP | 9.37e-100 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| JPODMPOM_54 | 28736 | 28344 | spxA1 | 3.31e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| JPODMPOM_54 | 28736 | 28344 | spx | 1.97e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| JPODMPOM_11 | 11066 | 11308 | SpoVG | 6.21e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| JPODMPOM_57 | 74387 | 74190 | CspA | 3.44e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| JPODMPOM_24 | 40903 | 41097 | CspD | 7.79e-29 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| JPODMPOM_23 | 94594 | 94788 | CspB | 1.15e-27 | cold shock protein | 83.08 | 98.48 | 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. |
|---|---|---|---|---|---|---|
| JPODMPOM_38 | 4464 | 4624 | Col(SD853) | 161 / 194 | 83.23 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| JPODMPOM_1 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_2 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_3 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_4 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_6 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_7 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_8 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_9 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_10 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_11 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_12 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_13 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_14 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_15 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_16 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_17 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_18 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_19 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_20 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_21 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_22 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_23 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_24 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_25 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_26 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_27 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_28 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_29 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_30 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_31 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_32 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_33 | 1.0 | 0.0 | 1.0 |
| JPODMPOM_34 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_35 | 1.0 | 0.0 | 1.0 |
| JPODMPOM_36 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_37 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_38 | 1.0 | 0.0 | 1.0 |
| JPODMPOM_39 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_40 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_41 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_42 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_43 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_44 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_45 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_46 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_47 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_48 | 1.0 | 0.0 | 1.0 |
| JPODMPOM_49 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_50 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_51 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_52 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_53 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_54 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_55 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_56 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_57 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_58 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_59 | 1.0 | 0.0 | 1.0 |
| JPODMPOM_60 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_61 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_62 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_63 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_64 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_65 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_66 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_67 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_68 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_69 | 1.0 | 0.0 | 1.0 |
| JPODMPOM_70 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_71 | 1.0 | 0.0 | 1.0 |
| JPODMPOM_72 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_74 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_75 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_76 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_77 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_78 | 1.0 | 0.0 | 1.0 |
| JPODMPOM_79 | 1.0 | 0.0 | 1.0 |
| JPODMPOM_80 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_81 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_82 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_83 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_84 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_85 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_86 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_87 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_89 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_90 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_91 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_92 | 1.0 | 0.0 | 1.0 |
| JPODMPOM_93 | 1.0 | 0.0 | 1.0 |
| JPODMPOM_94 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_95 | 0.0 | 1.0 | 0.0 |
| JPODMPOM_97 | 1.0 | 0.0 | 1.0 |
| JPODMPOM_98 | 1.0 | 0.0 | 1.0 |
| JPODMPOM_102 | 1.0 | 0.0 | 1.0 |
| JPODMPOM_103 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| JPODMPOM_1 | 274181 | 300681 | False | Myoviridae | VOG0720, VOG4555, VOG4553, VOG4564, VOG4623, VOG1353, VOG1881, VOG1883, VOG1352, VOG4699, VOG6163, VOG1956, VOG1433, VOG1348, VOG0573, VOG4550, VOG4691, VOG4845, VOG7718, VOG3390, VOG4705, VOG5008, VOG0753, VOG0136, VOG4574, VOG10547, VOG1301, VOG6116, VOG0221 |
| JPODMPOM_22 | 2165 | 19423 | False | Siphoviridae | VOG0801, VOG5910, VOG0541, VOG4586, VOG0704, VOG9583, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG3607, VOG1886, VOG4581, VOG0713, VOG4841, VOG0275 |
| JPODMPOM_22 | 26243 | 33977 | True | Siphoviridae | VOG7581, VOG9667, VOG9667, VOG1563, VOG0275, VOG0275 |
| JPODMPOM_37 | 5788 | 32473 | False | Myoviridae | VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
Phigaro v2.4.0 (Database: Jan. 2024 release)