Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 2 | 7 | 7.55 |
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. |
|---|---|---|---|---|---|---|---|---|
| BOKOFBJE_29 | 69081 | 70130 | clbA | ARO:3002814 | clbA | 99.43 | 100.00 | CP006845.1 |
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. |
|---|---|---|---|---|---|---|---|
| BOKOFBJE_29 | 69081 | 70116 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 88.80 | 98.67 | KR610408 |
| BOKOFBJE_2 | 377896 | 379272 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 87.00 | 100.00 | X08034 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| BOKOFBJE_29 | 69081 | 70127 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 99.43 | 100.00 | WP_012116915.1 |
| BOKOFBJE_2 | 377896 | 379266 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 86.21 | 99.78 | WP_003242953.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| BOKOFBJE_49 | 88013 | 89194 | capB | 0.0 | Capsule | Immune modulation | 81.96 | 99.66 | NP_391471 |
| BOKOFBJE_49 | 87549 | 87998 | capC | 1.99e-113 | Capsule | Immune modulation | 83.37 | 99.78 | 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 |
|---|---|---|---|---|---|---|---|---|
| BOKOFBJE_39 | 31684 | 32820 | tufA | 0.0 | elongation factor Tu | 86.81 | 95.69 | AHM69299 |
| BOKOFBJE_46 | 4313 | 5182 | pdxS | 6.82e-153 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| BOKOFBJE_18 | 341435 | 342211 | CodY | 6.31e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| BOKOFBJE_22 | 253065 | 253457 | spxA1 | 6.24e-70 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| BOKOFBJE_29 | 49224 | 49421 | CspA | 7.24e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| BOKOFBJE_4 | 15639 | 15445 | CspD | 9.34e-29 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| BOKOFBJE_4 | 15639 | 15442 | CspB | 1.94e-28 | cold shock protein | 80.30 | 100.00 | CAD00094 |
| BOKOFBJE_29 | 49224 | 49418 | CspR | 9.48e-27 | cold shock protein | 80.00 | 98.48 | AAO82613 |
| BOKOFBJE_55 | 149547 | 150419 | lipA (SAUSA300_0829) | 9.23e-163 | lipoic acid synthetase | 80.82 | 95.41 | ABD22039 |
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 |
|---|---|---|---|
| BOKOFBJE_1 | 1.0 | 0.0 | 1.0 |
| BOKOFBJE_2 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_4 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_5 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_7 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_9 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_12 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_14 | 1.0 | 0.0 | 1.0 |
| BOKOFBJE_17 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_18 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_19 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_20 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_21 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_22 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_24 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_25 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_26 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_28 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_29 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_30 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_32 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_34 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_35 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_36 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_39 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_44 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_45 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_46 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_47 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_48 | 1.0 | 0.0 | 1.0 |
| BOKOFBJE_49 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_50 | 1.0 | 0.0 | 1.0 |
| BOKOFBJE_51 | 1.0 | 0.0 | 1.0 |
| BOKOFBJE_52 | 1.0 | 0.0 | 1.0 |
| BOKOFBJE_54 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_55 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_58 | 1.0 | 0.0 | 1.0 |
| BOKOFBJE_60 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_61 | 1.0 | 0.0 | 1.0 |
| BOKOFBJE_62 | 1.0 | 0.0 | 1.0 |
| BOKOFBJE_63 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_64 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_65 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_66 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_67 | 1.0 | 0.0 | 1.0 |
| BOKOFBJE_68 | 1.0 | 0.0 | 1.0 |
| BOKOFBJE_69 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_70 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_71 | 1.0 | 0.0 | 1.0 |
| BOKOFBJE_72 | 1.0 | 0.0 | 1.0 |
| BOKOFBJE_73 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_74 | 1.0 | 0.0 | 1.0 |
| BOKOFBJE_75 | 1.0 | 0.0 | 1.0 |
| BOKOFBJE_76 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_77 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_78 | 1.0 | 0.0 | 1.0 |
| BOKOFBJE_79 | 1.0 | 0.0 | 1.0 |
| BOKOFBJE_80 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_81 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_82 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_83 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_84 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_85 | 0.0 | 1.0 | 0.0 |
| BOKOFBJE_86 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| BOKOFBJE_19 | 48832 | 75202 | False | Myoviridae | VOG9667, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG3390, VOG4705 |
| BOKOFBJE_63 | 2614 | 24641 | False | Siphoviridae | VOG0136, VOG0753, VOG5535, VOG4599, VOG4605, VOG4545, VOG0725, VOG2621, VOG0799, VOG0724, VOG5660, VOG0816, VOG4623, VOG0815, VOG1125, VOG4553, VOG4555, VOG4564, VOG0720, VOG10439, VOG0796, VOG4681, VOG3244 |
| BOKOFBJE_66 | 3247 | 27198 | False | Siphoviridae | VOG0641, VOG7896, VOG3390, VOG4612, VOG4660, VOG4772, VOG0801, VOG5910, VOG0541, VOG4586, VOG0704, VOG0539, VOG1266, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG3607, VOG1886, VOG4581, VOG0713, VOG4841, VOG0531, VOG0275, VOG0198 |
Phigaro v2.4.0 (Database: Jan. 2024 release)