Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 4 | 2 | 7 | 8.31 |
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. |
|---|---|---|---|---|---|---|---|---|
| PKJAKLKL_13 | 48012 | 49058 | clbA | ARO:3002814 | clbA | 92.77 | 99.71 | 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. |
|---|---|---|---|---|---|---|---|
| PKJAKLKL_13 | 48015 | 49058 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 88.90 | 99.33 | KR610408 |
| PKJAKLKL_8 | 528272 | 529648 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 87.15 | 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. |
|---|---|---|---|---|---|---|---|---|
| PKJAKLKL_13 | 48015 | 49058 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 92.24 | 99.71 | WP_012116915.1 |
| PKJAKLKL_8 | 528278 | 529648 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 86.43 | 99.78 | WP_003242953.1 |
| PKJAKLKL_13 | 50809 | 51327 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 82.66 | 100.00 | WP_003242546.1 |
| PKJAKLKL_18 | 146022 | 148619 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.06 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| PKJAKLKL_3 | 377239 | 378420 | capB | 0.0 | Capsule | Immune modulation | 81.87 | 99.66 | NP_391471 |
| PKJAKLKL_3 | 378435 | 378884 | capC | 2.73e-114 | Capsule | Immune modulation | 83.59 | 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 |
|---|---|---|---|---|---|---|---|---|
| PKJAKLKL_14 | 27529 | 26393 | tufA | 0.0 | elongation factor Tu | 86.54 | 95.69 | AHM69299 |
| PKJAKLKL_24 | 4254 | 5123 | pdxS | 6.31e-153 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| PKJAKLKL_1 | 63613 | 62837 | CodY | 3.30e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| PKJAKLKL_2 | 41588 | 41196 | spxA1 | 2.98e-70 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| PKJAKLKL_13 | 65554 | 65357 | CspA | 2.73e-32 | cold shock protein | 92.42 | 100.00 | CAA62903 |
| PKJAKLKL_8 | 104818 | 105012 | CspD | 1.84e-27 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| PKJAKLKL_22 | 26552 | 26746 | CspB | 1.95e-27 | cold shock protein | 84.61 | 98.48 | CAD00094 |
| PKJAKLKL_13 | 65554 | 65360 | CspR | 1.35e-26 | cold shock protein | 80.00 | 98.48 | AAO82613 |
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 |
|---|---|---|---|
| PKJAKLKL_1 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_2 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_3 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_4 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_5 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_6 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_7 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_8 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_9 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_10 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_11 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_12 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_13 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_14 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_15 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_17 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_18 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_19 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_20 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_21 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_22 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_23 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_24 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_25 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_26 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_27 | 1.0 | 0.0 | 1.0 |
| PKJAKLKL_28 | 1.0 | 0.0 | 1.0 |
| PKJAKLKL_29 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_30 | 0.0 | 1.0 | 0.0 |
| PKJAKLKL_31 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| PKJAKLKL_1 | 388608 | 393017 | False | Myoviridae | VOG3390, VOG7718, VOG4862, VOG4691 |
| PKJAKLKL_8 | 450475 | 478394 | False | Myoviridae | VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG0979, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG6480, VOG4688, VOG4773, VOG10227, VOG0796, VOG10057 |
| PKJAKLKL_8 | 482193 | 487712 | False | Siphoviridae | VOG4693, VOG0189, VOG11060, VOG1309, VOG4600, VOG4603 |
| PKJAKLKL_9 | 5998 | 30913 | False | Siphoviridae | VOG5447, VOG4972, VOG4681, VOG0796, VOG10227, VOG0720, VOG4564, VOG6778, VOG4555, VOG1329, VOG2621, VOG5872, VOG4623, VOG0816, VOG5660, VOG0724, VOG0799, VOG0725, VOG4545, VOG4605, VOG4599, VOG3390, VOG5535, VOG0753, VOG0136, VOG4574 |
| PKJAKLKL_21 | 4913 | 15913 | False | Siphoviridae | VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG9667, VOG4602 |
| PKJAKLKL_22 | 66607 | 91839 | False | Siphoviridae | VOG10230, VOG0641, VOG4705, VOG3390, VOG4612, VOG4660, VOG4619, VOG0801, VOG6163, VOG0541, VOG4586, VOG0539, VOG0704, VOG4589, VOG0204, VOG3435, VOG4553, VOG4573, VOG4556, VOG4556, VOG4544, VOG0519, VOG0531, VOG7884, VOG0275, VOG0198, VOG6242, VOG6517 |
| PKJAKLKL_25 | 12884 | 19794 | False | Siphoviridae | VOG4602, VOG8483, VOG9667, VOG11075, VOG0650, VOG4552, VOG4600 |
| PKJAKLKL_26 | 4295 | 28621 | False | Siphoviridae | VOG0054, VOG8537, VOG10230, VOG4660, VOG9712, VOG5042, VOG3389, VOG4910, VOG9312, VOG1637, VOG0275, VOG7930, VOG8610, VOG5008, VOG4705, VOG3390, VOG7718 |
Phigaro v2.4.0 (Database: Jan. 2024 release)