Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 8 | 18.25 |
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. |
|---|---|---|---|---|---|---|---|---|
| FLAPELCE_2 | 430847 | 431164 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| FLAPELCE_2 | 430509 | 430847 | ykkC | ARO:3003063 | ykkC | 99.11 | 100.00 | AL009126.1 |
| FLAPELCE_3 | 359616 | 360536 | mphK | ARO:3004541 | mphK | 97.71 | 100.00 | CP010314.1 |
| FLAPELCE_3 | 346287 | 347726 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.42 | JYFL01000006.1 |
| FLAPELCE_4 | 313462 | 314631 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| FLAPELCE_3 | 296579 | 297172 | tmrB | ARO:3003059 | tmrB | 97.46 | 100.00 | AL009126.3 |
| FLAPELCE_6 | 257685 | 260255 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.65 | 100.00 | AL009126.3 |
| FLAPELCE_4 | 143492 | 144694 | blt | ARO:3003006 | blt | 99.00 | 100.00 | L32599.1 |
| FLAPELCE_4 | 114604 | 115458 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| FLAPELCE_3 | 29119 | 30765 | vmlR | ARO:3004476 | vmlR | 98.36 | 100.18 | NC_000964.3 |
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. |
|---|---|---|---|---|---|---|---|
| FLAPELCE_4 | 114604 | 115458 | aadK | Streptomycin | 98.83 | 100.00 | M26879 |
| FLAPELCE_1 | 1010788 | 1012164 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 97.82 | 100.00 | X08034 |
| FLAPELCE_3 | 359616 | 360536 | mph(K) | Spiramycin, Telithromycin | 97.18 | 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. |
|---|---|---|---|---|---|---|---|---|
| FLAPELCE_4 | 114604 | 115455 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| FLAPELCE_3 | 29119 | 30762 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.36 | 100.00 | WP_003234144.1 |
| FLAPELCE_1 | 1010791 | 1012164 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 97.82 | 100.00 | WP_003242953.1 |
| FLAPELCE_3 | 359619 | 360536 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.71 | 100.00 | WP_003246254.1 |
| FLAPELCE_1 | 1008288 | 1008806 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 93.64 | 100.00 | WP_003242546.1 |
| FLAPELCE_7 | 55303 | 57900 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.37 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| FLAPELCE_1 | 113167 | 113952 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.75 | 100.00 | NP_391080 |
| FLAPELCE_7 | 157624 | 158265 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.53 | 100.00 | NP_390062 |
| FLAPELCE_1 | 518639 | 519820 | capB | 0.0 | Capsule | Immune modulation | 99.41 | 100.00 | NP_391471 |
| FLAPELCE_1 | 517014 | 518156 | capA | 0.0 | Capsule | Immune modulation | 99.21 | 100.00 | NP_391469 |
| FLAPELCE_1 | 518175 | 518624 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| FLAPELCE_1 | 111945 | 113141 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.08 | 100.00 | NP_391079 |
| FLAPELCE_1 | 102175 | 109311 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.53 | 100.00 | NP_391076 |
| FLAPELCE_7 | 9397 | 11160 | dep/capD | 0.0 | Capsule | Immune modulation | 98.47 | 100.00 | NP_389723 |
| FLAPELCE_1 | 109331 | 110269 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.30 | 100.00 | NP_391077 |
| FLAPELCE_1 | 110297 | 111916 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.27 | 100.00 | NP_391078 |
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 |
|---|---|---|---|---|---|---|---|---|
| FLAPELCE_11 | 31766 | 32902 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| FLAPELCE_12 | 11209 | 10340 | pdxS | 1.54e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| FLAPELCE_2 | 742664 | 743440 | CodY | 7.53e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| FLAPELCE_1 | 377063 | 377632 | ClpP | 6.30e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| FLAPELCE_2 | 275639 | 276031 | spxA1 | 5.92e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| FLAPELCE_2 | 275639 | 276031 | spx | 3.53e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| FLAPELCE_10 | 34727 | 34485 | SpoVG | 7.52e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| FLAPELCE_3 | 91606 | 91409 | CspA | 1.94e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| FLAPELCE_7 | 170229 | 170423 | CspD | 1.36e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
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 |
|---|---|---|---|
| FLAPELCE_1 | 0.0 | 1.0 | 0.0 |
| FLAPELCE_2 | 0.0 | 1.0 | 0.0 |
| FLAPELCE_3 | 0.0 | 1.0 | 0.0 |
| FLAPELCE_4 | 0.0 | 1.0 | 0.0 |
| FLAPELCE_5 | 0.0 | 1.0 | 0.0 |
| FLAPELCE_6 | 0.0 | 1.0 | 0.0 |
| FLAPELCE_7 | 0.0 | 1.0 | 0.0 |
| FLAPELCE_8 | 0.0 | 1.0 | 0.0 |
| FLAPELCE_9 | 0.0 | 1.0 | 0.0 |
| FLAPELCE_10 | 0.0 | 1.0 | 0.0 |
| FLAPELCE_11 | 0.0 | 1.0 | 0.0 |
| FLAPELCE_12 | 0.0 | 1.0 | 0.0 |
| FLAPELCE_13 | 0.0 | 1.0 | 0.0 |
| FLAPELCE_14 | 0.0 | 1.0 | 0.0 |
| FLAPELCE_15 | 0.0 | 1.0 | 0.0 |
| FLAPELCE_17 | 0.0 | 1.0 | 0.0 |
| FLAPELCE_18 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| FLAPELCE_2 | 374494 | 400659 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
Phigaro v2.4.0 (Database: Jan. 2024 release)