Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 7 | 10 | 3 | 12.57 |
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. |
|---|---|---|---|---|---|---|---|---|
| FKFCNPJD_1 | 2552483 | 2553403 | mphK | ARO:3004541 | mphK | 98.37 | 100.00 | CP010314.1 |
| FKFCNPJD_1 | 1980102 | 1982672 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.42 | 100.00 | AL009126.3 |
| FKFCNPJD_1 | 1528106 | 1528444 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| FKFCNPJD_1 | 1527789 | 1528106 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
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. |
|---|---|---|---|---|---|---|---|
| FKFCNPJD_1 | 2552483 | 2553403 | mph(K) | Spiramycin, Telithromycin | 98.37 | 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. |
|---|---|---|---|---|---|---|---|---|
| FKFCNPJD_1 | 2552486 | 2553403 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.37 | 100.00 | WP_003246254.1 |
| FKFCNPJD_1 | 2930129 | 2930500 | satA | streptothricin N-acetyltransferase SatA | PARTIALX | 91.13 | 71.68 | WP_003242546.1 |
| FKFCNPJD_1 | 2283344 | 2284564 | vmlR | ABC-F type ribosomal protection protein VmlR | INTERNAL_STOP | 82.04 | 74.41 | WP_003234144.1 |
| FKFCNPJD_1 | 960478 | 963072 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.18 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| FKFCNPJD_1 | 847715 | 848357 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.53 | 100.00 | NP_390062 |
| FKFCNPJD_1 | 3852826 | 3853611 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| FKFCNPJD_1 | 3401033 | 3402175 | capA | 0.0 | Capsule | Immune modulation | 99.21 | 100.00 | NP_391469 |
| FKFCNPJD_1 | 3399368 | 3400548 | capB | 0.0 | Capsule | Immune modulation | 99.07 | 99.92 | NP_391471 |
| FKFCNPJD_1 | 3856501 | 3857439 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.94 | 99.89 | NP_391077 |
| FKFCNPJD_1 | 1012412 | 1014178 | dep/capD | 0.0 | Capsule | Immune modulation | 98.81 | 100.06 | NP_389723 |
| FKFCNPJD_1 | 3853637 | 3854834 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.66 | 100.00 | NP_391079 |
| FKFCNPJD_1 | 3857459 | 3864599 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.63 | 99.99 | NP_391076 |
| FKFCNPJD_1 | 3854852 | 3856473 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.46 | 100.00 | NP_391078 |
| FKFCNPJD_1 | 3400563 | 3401014 | capC | 0.0 | Capsule | Immune modulation | 98.45 | 100.22 | 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 |
|---|---|---|---|---|---|---|---|---|
| FKFCNPJD_1 | 2878618 | 2877749 | pdxS | 2.94e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| FKFCNPJD_1 | 1215890 | 1215114 | CodY | 3.21e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| FKFCNPJD_1 | 3558292 | 3557723 | ClpP | 2.38e-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. |
|---|---|---|---|---|---|---|
| FKFCNPJD_3 | 2575 | 2735 | Col(SD853) | 161 / 194 | 83.85 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| FKFCNPJD_1 | 0.0 | 1.0 | 0.0 |
| FKFCNPJD_2 | 1.0 | 0.0 | 1.0 |
| FKFCNPJD_3 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| FKFCNPJD_1 | 1561628 | 1575839 | False | Myoviridae | VOG3892, VOG3891, VOG3890, VOG3890, VOG3890, VOG3890, VOG10055, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667, VOG4602 |
| FKFCNPJD_1 | 2683816 | 2691877 | False | Myoviridae | VOG4705, VOG3390, VOG7718, VOG4862, VOG4862, VOG4691, VOG3894, VOG4885, VOG4865, VOG6163 |
| FKFCNPJD_1 | 2695693 | 2708863 | False | Myoviridae | VOG3892, VOG3891, VOG3890, VOG3890, VOG10055, VOG4870, VOG1581, VOG0749, VOG4685, VOG4685, VOG4685, VOG6965, VOG4688, VOG4773, VOG10227, VOG9315 |
| FKFCNPJD_1 | 2722711 | 2727801 | False | Unknown | VOG1292, VOG1309, VOG0083, VOG1878 |
| FKFCNPJD_1 | 3756400 | 3787626 | False | Siphoviridae | VOG4602, VOG9667, VOG0181, VOG4556, VOG0787, VOG1638, VOG4552, VOG4566, VOG9600, VOG0025, VOG0025, VOG1884, VOG0198, VOG4841, VOG4581, VOG4544, VOG3644, VOG4556, VOG4568, VOG0083, VOG4553, VOG5361, VOG0204, VOG0704, VOG4586, VOG0541, VOG5910, VOG4545, VOG6163, VOG0801, VOG4619, VOG4619, VOG3462, VOG4660, VOG4660, VOG4660, VOG4612, VOG4612, VOG3390, VOG4705 |
Phigaro v2.4.0 (Database: Jan. 2024 release)