Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 4 | 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. |
|---|---|---|---|---|---|---|---|---|
| DOKCGBOE_1 | 3672537 | 3673391 | aadK | ARO:3002627 | aadK | 97.54 | 100.00 | AL009126.1 |
| DOKCGBOE_1 | 3655468 | 3656670 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
| DOKCGBOE_1 | 3429415 | 3430584 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
| DOKCGBOE_1 | 2481223 | 2481540 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| DOKCGBOE_1 | 2480885 | 2481223 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| DOKCGBOE_1 | 2000609 | 2003179 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| DOKCGBOE_1 | 1457297 | 1457890 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| DOKCGBOE_1 | 1406739 | 1408172 | lmrB | ARO:3002813 | lmrB | 98.95 | 100.00 | JYFL01000006.1 |
| DOKCGBOE_1 | 1380458 | 1381378 | mphK | ARO:3004541 | mphK | 98.04 | 100.00 | CP010314.1 |
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. |
|---|---|---|---|---|---|---|---|
| DOKCGBOE_1 | 1067048 | 1068424 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 99.93 | 100.00 | X08034 |
| DOKCGBOE_1 | 3672539 | 3673391 | aadK | Streptomycin | 98.48 | 99.77 | M26879 |
| DOKCGBOE_1 | 1380458 | 1381378 | mph(K) | Spiramycin, Telithromycin | 97.83 | 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. |
|---|---|---|---|---|---|---|---|---|
| DOKCGBOE_1 | 1067051 | 1068424 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 99.78 | 100.00 | WP_003242953.1 |
| DOKCGBOE_1 | 1380458 | 1381375 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.04 | 100.00 | WP_003246254.1 |
| DOKCGBOE_1 | 1697344 | 1698984 | vmlR | ABC-F type ribosomal protection protein VmlR | INTERNAL_STOP | 97.62 | 100.00 | WP_003234144.1 |
| DOKCGBOE_1 | 3672540 | 3673391 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.54 | 100.00 | WP_003229862.1 |
| DOKCGBOE_1 | 1064577 | 1065095 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| DOKCGBOE_1 | 3070839 | 3073436 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.83 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| DOKCGBOE_1 | 570469 | 571650 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| DOKCGBOE_1 | 131715 | 132500 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| DOKCGBOE_1 | 127879 | 128817 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391077 |
| DOKCGBOE_1 | 130493 | 131689 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.08 | 100.00 | NP_391079 |
| DOKCGBOE_1 | 120723 | 127859 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.08 | 100.00 | NP_391076 |
| DOKCGBOE_1 | 3226746 | 3227387 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 98.91 | 100.00 | NP_390062 |
| DOKCGBOE_1 | 568844 | 569986 | capA | 0.0 | Capsule | Immune modulation | 98.86 | 100.00 | NP_391469 |
| DOKCGBOE_1 | 3018172 | 3019935 | dep/capD | 0.0 | Capsule | Immune modulation | 98.81 | 100.00 | NP_389723 |
| DOKCGBOE_1 | 570005 | 570454 | capC | 0.0 | Capsule | Immune modulation | 98.67 | 100.00 | NP_391470 |
| DOKCGBOE_1 | 128845 | 130464 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.52 | 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 |
|---|---|---|---|---|---|---|---|---|
| DOKCGBOE_1 | 1221411 | 1222547 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| DOKCGBOE_1 | 1112165 | 1113034 | pdxS | 3.05e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| DOKCGBOE_1 | 2799165 | 2799941 | CodY | 3.33e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| DOKCGBOE_1 | 412478 | 413047 | ClpP | 2.47e-98 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
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 |
|---|---|---|---|
| DOKCGBOE_1 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| DOKCGBOE_1 | 198224 | 221715 | False | Siphoviridae | VOG4666, VOG0641, VOG4705, VOG3390, VOG4612, VOG4626, VOG4619, VOG0801, VOG6163, VOG4544, VOG4581, VOG4556, VOG4841, VOG0198, VOG1884, VOG0025, VOG9600, VOG11060, VOG4552, VOG1638, VOG0787 |
| DOKCGBOE_1 | 1257298 | 1263692 | False | Unknown | VOG9667, VOG9667, VOG8241, VOG3549, VOG1878, VOG0083, VOG1309, VOG1292 |
| DOKCGBOE_1 | 2423157 | 2451404 | False | Myoviridae | VOG0101, VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
| DOKCGBOE_1 | 3604726 | 3627504 | False | Myoviridae | VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG10227 |
Phigaro v2.4.0 (Database: Jan. 2024 release)