Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 9 | 18.71 |
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. |
|---|---|---|---|---|---|---|---|---|
| JJNMJNJD_11 | 697186 | 698355 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| JJNMJNJD_11 | 523902 | 525104 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
| JJNMJNJD_11 | 507180 | 508034 | aadK | ARO:3002627 | aadK | 97.18 | 100.00 | AL009126.1 |
| JJNMJNJD_4 | 194265 | 195911 | vmlR | ARO:3004476 | vmlR | 99.45 | 100.18 | NC_000964.3 |
| JJNMJNJD_8 | 187584 | 190154 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| JJNMJNJD_14 | 113947 | 114867 | mphK | ARO:3004541 | mphK | 98.69 | 100.00 | CP010314.1 |
| JJNMJNJD_17 | 110928 | 111245 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| JJNMJNJD_17 | 110590 | 110928 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| JJNMJNJD_14 | 100614 | 102053 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.42 | JYFL01000006.1 |
| JJNMJNJD_14 | 50904 | 51497 | tmrB | ARO:3003059 | tmrB | 97.46 | 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. |
|---|---|---|---|---|---|---|---|
| JJNMJNJD_14 | 113947 | 114867 | mph(K) | Spiramycin, Telithromycin | 99.35 | 100.00 | NC_000964 |
| JJNMJNJD_1 | 34425 | 35801 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 99.13 | 100.00 | X08034 |
| JJNMJNJD_11 | 507180 | 508034 | aadK | Streptomycin | 98.25 | 100.00 | M26879 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| JJNMJNJD_4 | 194268 | 195911 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 99.45 | 100.00 | WP_003234144.1 |
| JJNMJNJD_1 | 34425 | 35798 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 99.13 | 100.00 | WP_003242953.1 |
| JJNMJNJD_14 | 113950 | 114867 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.69 | 100.00 | WP_003246254.1 |
| JJNMJNJD_11 | 507180 | 508031 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.18 | 100.00 | WP_003229862.1 |
| JJNMJNJD_1 | 37769 | 38287 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 93.06 | 100.00 | WP_003242546.1 |
| JJNMJNJD_19 | 5133 | 7730 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.76 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| JJNMJNJD_11 | 895015 | 895656 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.84 | 100.00 | NP_390062 |
| JJNMJNJD_1 | 527762 | 528943 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| JJNMJNJD_1 | 946951 | 947736 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.62 | 100.00 | NP_391080 |
| JJNMJNJD_19 | 60199 | 61962 | dep/capD | 0.0 | Capsule | Immune modulation | 99.26 | 100.00 | NP_389723 |
| JJNMJNJD_1 | 950634 | 951572 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.25 | 100.00 | NP_391077 |
| JJNMJNJD_1 | 529426 | 530568 | capA | 0.0 | Capsule | Immune modulation | 99.04 | 100.00 | NP_391469 |
| JJNMJNJD_1 | 528958 | 529407 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| JJNMJNJD_1 | 951592 | 958728 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.58 | 100.00 | NP_391076 |
| JJNMJNJD_1 | 947762 | 948958 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.50 | 100.00 | NP_391079 |
| JJNMJNJD_1 | 948987 | 950606 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.16 | 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 |
|---|---|---|---|---|---|---|---|---|
| JJNMJNJD_24 | 31658 | 32794 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| JJNMJNJD_15 | 11329 | 10460 | pdxS | 1.12e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| JJNMJNJD_12 | 56212 | 56988 | CodY | 2.00e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| JJNMJNJD_1 | 685515 | 684946 | ClpP | 6.38e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| JJNMJNJD_7 | 218505 | 218897 | spxA1 | 1.63e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| JJNMJNJD_7 | 218505 | 218897 | spx | 9.71e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| JJNMJNJD_13 | 34692 | 34450 | SpoVG | 7.49e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| JJNMJNJD_4 | 145746 | 145943 | CspA | 9.71e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| JJNMJNJD_10 | 31576 | 31382 | CspB | 5.56e-28 | cold shock protein | 83.08 | 98.48 | CAD00094 |
| JJNMJNJD_11 | 883786 | 883592 | CspD | 2.35e-27 | cold shock protein | 80.00 | 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 |
|---|---|---|---|
| JJNMJNJD_1 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_2 | 1.0 | 0.0 | 1.0 |
| JJNMJNJD_3 | 1.0 | 0.0 | 1.0 |
| JJNMJNJD_4 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_5 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_6 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_7 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_8 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_10 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_11 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_12 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_13 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_14 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_15 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_16 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_17 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_18 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_19 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_20 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_21 | 1.0 | 0.0 | 1.0 |
| JJNMJNJD_22 | 1.0 | 0.0 | 1.0 |
| JJNMJNJD_23 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_24 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_25 | 0.0 | 1.0 | 0.0 |
| JJNMJNJD_26 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| JJNMJNJD_11 | 275819 | 299267 | False | Myoviridae | VOG0720, VOG4555, VOG4553, VOG4564, VOG4623, VOG1353, VOG1881, VOG1883, VOG1352, VOG4699, VOG6163, VOG1956, VOG1433, VOG1348, VOG0573, VOG4550, VOG4691, VOG4845, VOG7718, VOG3390, VOG4705, VOG0641, VOG4574, VOG6116 |
| JJNMJNJD_11 | 350890 | 376946 | False | Siphoviridae | VOG2752, VOG7372, VOG0198, VOG4581, VOG1886, VOG3607, VOG4556, VOG4568, VOG4553, VOG5361, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG5910, VOG4545, VOG0801, VOG4619, VOG4626, VOG4612, VOG3390, VOG4705, VOG0641, VOG4574 |
| JJNMJNJD_17 | 56052 | 81351 | 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, VOG7895, VOG0753 |
| JJNMJNJD_18 | 12795 | 27600 | False | Siphoviridae | VOG4705, VOG3390, VOG4626, VOG9712, VOG5042, VOG3389, VOG4910, VOG9312, VOG9312 |
| JJNMJNJD_18 | 37453 | 47380 | False | Myoviridae | VOG7134, VOG10940, VOG5721, VOG5779, VOG5722, VOG4570 |
Phigaro v2.4.0 (Database: Jan. 2024 release)