Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 1 | 2 | 7 | 7.35 |
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. |
|---|---|---|---|---|---|---|---|---|
| CGEHFNKO_44 | 393519 | 394568 | clbA | ARO:3002814 | clbA | 99.71 | 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. |
|---|---|---|---|---|---|---|---|
| CGEHFNKO_44 | 393519 | 394554 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 89.09 | 98.67 | KR610408 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| CGEHFNKO_44 | 393519 | 394565 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 99.71 | 100.00 | WP_012116915.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| CGEHFNKO_22 | 28634 | 29815 | capB | 0.0 | Capsule | Immune modulation | 81.79 | 99.66 | NP_391471 |
| CGEHFNKO_22 | 28170 | 28619 | capC | 9.05e-118 | Capsule | Immune modulation | 84.03 | 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 |
|---|---|---|---|---|---|---|---|---|
| CGEHFNKO_1 | 31771 | 32907 | tufA | 0.0 | elongation factor Tu | 86.81 | 95.69 | AHM69299 |
| CGEHFNKO_6 | 4394 | 5263 | pdxS | 1.37e-152 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| CGEHFNKO_11 | 145157 | 145933 | CodY | 1.79e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| CGEHFNKO_2 | 36205 | 35813 | spxA1 | 1.28e-70 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| CGEHFNKO_44 | 382610 | 382807 | CspA | 7.63e-31 | cold shock protein | 89.39 | 100.00 | CAA62903 |
| CGEHFNKO_49 | 194327 | 194521 | CspB | 4.85e-27 | cold shock protein | 84.61 | 98.48 | CAD00094 |
| CGEHFNKO_33 | 142917 | 142045 | lipA (SAUSA300_0829) | 1.59e-162 | 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 |
|---|---|---|---|
| CGEHFNKO_1 | 0.0 | 1.0 | 0.0 |
| CGEHFNKO_2 | 0.0 | 1.0 | 0.0 |
| CGEHFNKO_3 | 0.0 | 1.0 | 0.0 |
| CGEHFNKO_4 | 0.0 | 1.0 | 0.0 |
| CGEHFNKO_5 | 0.0 | 1.0 | 0.0 |
| CGEHFNKO_6 | 0.0 | 1.0 | 0.0 |
| CGEHFNKO_7 | 1.0 | 0.0 | 1.0 |
| CGEHFNKO_11 | 0.0 | 1.0 | 0.0 |
| CGEHFNKO_22 | 0.0 | 1.0 | 0.0 |
| CGEHFNKO_33 | 0.0 | 1.0 | 0.0 |
| CGEHFNKO_44 | 0.0 | 1.0 | 0.0 |
| CGEHFNKO_48 | 0.0 | 1.0 | 0.0 |
| CGEHFNKO_49 | 0.0 | 1.0 | 0.0 |
| CGEHFNKO_50 | 0.0 | 1.0 | 0.0 |
| CGEHFNKO_51 | 0.0 | 1.0 | 0.0 |
| CGEHFNKO_52 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| CGEHFNKO_11 | 676296 | 702640 | False | Siphoviridae | VOG0052, VOG10230, VOG0641, VOG7896, VOG3390, VOG4612, VOG4660, VOG4619, VOG0801, VOG6163, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG1886, VOG4581 |
| CGEHFNKO_11 | 1283901 | 1310544 | False | Myoviridae | VOG4574, VOG0136, VOG0753, VOG4705, VOG3390, VOG7718, VOG4845, VOG4691, VOG4550, VOG0573, VOG1348, VOG1433, VOG1956, VOG6163, VOG4699, VOG1352, VOG1883, VOG1881, VOG1353, VOG4623, VOG4564, VOG1643, VOG4572, VOG4555, VOG0045, VOG1183, VOG0720, VOG10439, VOG0796, VOG0052 |
| CGEHFNKO_11 | 1318091 | 1320071 | False | Unknown | VOG4566 |
| CGEHFNKO_33 | 284956 | 309607 | False | Siphoviridae | VOG10230, VOG0641, VOG4705, VOG3390, VOG4612, VOG4660, VOG4619, VOG0801, VOG6163, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG4553, VOG4568, VOG4556, VOG4544, VOG4581, VOG4841, VOG0531, VOG0275, VOG0198, VOG6242 |
| CGEHFNKO_51 | 61632 | 88014 | False | Myoviridae | VOG0136, VOG0753, VOG4705, VOG3390, VOG4612, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189 |
Phigaro v2.4.0 (Database: Jan. 2024 release)