Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 3 | 2 | 3 | 4.69 |
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. |
|---|---|---|---|---|---|---|---|---|
| IPCAFADI_1 | 550413 | 551462 | clbA | ARO:3002814 | clbA | 92.26 | 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. |
|---|---|---|---|---|---|---|---|
| IPCAFADI_1 | 550413 | 551462 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 89.14 | 100.00 | 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. |
|---|---|---|---|---|---|---|---|---|
| IPCAFADI_1 | 550413 | 551459 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 92.26 | 100.00 | WP_012116915.1 |
| IPCAFADI_1 | 547425 | 547943 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 84.97 | 100.00 | WP_003242546.1 |
| IPCAFADI_1 | 1752776 | 1755373 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.29 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| IPCAFADI_1 | 3393790 | 3394971 | capB | 0.0 | Capsule | Immune modulation | 82.04 | 99.66 | NP_391471 |
| IPCAFADI_1 | 3393326 | 3393775 | capC | 1.43e-113 | 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 |
|---|---|---|---|---|---|---|---|---|
| IPCAFADI_1 | 133405 | 134541 | tufA | 0.0 | elongation factor Tu | 86.54 | 95.69 | AHM69299 |
| IPCAFADI_1 | 18627 | 19496 | pdxS | 5.88e-150 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| IPCAFADI_1 | 1545505 | 1546281 | CodY | 3.19e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
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 |
|---|---|---|---|
| IPCAFADI_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 |
|---|---|---|---|---|---|
| IPCAFADI_1 | 1196011 | 1223068 | False | Myoviridae | VOG9667, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG4612, VOG3390, VOG4705, VOG0753 |
| IPCAFADI_1 | 2019482 | 2049312 | False | Siphoviridae | VOG8483, VOG3532, VOG10547, VOG10230, VOG0641, VOG7896, VOG3390, VOG4612, VOG4660, VOG4619, VOG0801, VOG6163, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG1886, VOG4581, VOG2703, VOG2703 |
| IPCAFADI_1 | 2053450 | 2059276 | False | Unknown | VOG4566, VOG0186, VOG8233, VOG1878, VOG4552, VOG0650, VOG9667 |
| IPCAFADI_1 | 2078647 | 2107461 | False | Siphoviridae | VOG11003, VOG6116, VOG8440, VOG4707, VOG0136, VOG4705, VOG3390, VOG4612, VOG4660, VOG4619, VOG0801, VOG6163, VOG0541, VOG4586, VOG0704, VOG4589, VOG0204, VOG4553, VOG4573, VOG4556, VOG1886, VOG4581 |
| IPCAFADI_1 | 2121046 | 2126704 | False | Myoviridae | VOG4724, VOG4966, VOG7462, VOG0026, VOG0052 |
| IPCAFADI_1 | 2838446 | 2871465 | False | Siphoviridae | VOG5216, VOG5353, VOG6116, VOG0602, VOG4824, VOG5221, VOG4705, VOG3390, VOG4612, VOG4660, VOG4619, VOG0801, VOG4545, VOG11074, VOG0724, VOG5361, VOG3676, VOG4555, VOG0692, VOG2613, VOG3699, VOG5023, VOG0275, VOG0274, VOG2215, VOG0101, VOG0048, VOG7910, VOG4791, VOG2167 |
| IPCAFADI_1 | 2889070 | 2893133 | False | Unknown | VOG0026, VOG2920 |
Phigaro v2.4.0 (Database: Jan. 2024 release)