Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 4 | 16.88 |
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. |
|---|---|---|---|---|---|---|---|---|
| GBCLOFCM_1 | 3765584 | 3766504 | mphK | ARO:3004541 | mphK | 98.69 | 100.00 | CP010314.1 |
| GBCLOFCM_1 | 3752257 | 3753690 | lmrB | ARO:3002813 | lmrB | 100.00 | 100.00 | JYFL01000006.1 |
| GBCLOFCM_1 | 3702598 | 3703191 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| GBCLOFCM_1 | 3451099 | 3452742 | vmlR | ARO:3004476 | vmlR | 98.35 | 100.00 | NC_000964.3 |
| GBCLOFCM_1 | 3156080 | 3158650 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| GBCLOFCM_1 | 2693100 | 2693438 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| GBCLOFCM_1 | 2692783 | 2693100 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| GBCLOFCM_1 | 1705378 | 1706547 | bmr | ARO:3003007 | bmr | 99.23 | 100.00 | M33768.1 |
| GBCLOFCM_1 | 1508442 | 1509644 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
| GBCLOFCM_1 | 1490422 | 1491276 | aadK | ARO:3002627 | aadK | 98.24 | 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. |
|---|---|---|---|---|---|---|---|
| GBCLOFCM_1 | 28260 | 29636 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 98.98 | 100.00 | D12567 |
| GBCLOFCM_1 | 1490422 | 1491274 | aadK | Streptomycin | 98.71 | 99.77 | M26879 |
| GBCLOFCM_1 | 3765584 | 3766504 | mph(K) | Spiramycin, Telithromycin | 98.48 | 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. |
|---|---|---|---|---|---|---|---|---|
| GBCLOFCM_1 | 28260 | 29633 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.91 | 100.00 | WP_063856081.1 |
| GBCLOFCM_1 | 3765587 | 3766504 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.69 | 100.00 | WP_003246254.1 |
| GBCLOFCM_1 | 3451099 | 3452739 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.35 | 100.00 | WP_003234144.1 |
| GBCLOFCM_1 | 1490422 | 1491273 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| GBCLOFCM_1 | 31590 | 32009 | satA | streptothricin N-acetyltransferase SatA | PARTIALX | 88.57 | 80.92 | WP_003242546.1 |
| GBCLOFCM_1 | 2011799 | 2014360 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.14 | 98.62 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| GBCLOFCM_1 | 938367 | 939305 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.89 | 100.00 | NP_391077 |
| GBCLOFCM_1 | 939325 | 946461 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.78 | 100.00 | NP_391076 |
| GBCLOFCM_1 | 519425 | 520606 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| GBCLOFCM_1 | 936720 | 938339 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.57 | 100.00 | NP_391078 |
| GBCLOFCM_1 | 520621 | 521070 | capC | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391470 |
| GBCLOFCM_1 | 934684 | 935469 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.49 | 100.00 | NP_391080 |
| GBCLOFCM_1 | 2063128 | 2064891 | dep/capD | 0.0 | Capsule | Immune modulation | 99.38 | 100.00 | NP_389723 |
| GBCLOFCM_1 | 935495 | 936691 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.25 | 100.00 | NP_391079 |
| GBCLOFCM_1 | 1905860 | 1906501 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.22 | 100.00 | NP_390062 |
| GBCLOFCM_1 | 521089 | 522231 | capA | 0.0 | Capsule | Immune modulation | 99.21 | 100.00 | NP_391469 |
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 |
|---|---|---|---|---|---|---|---|---|
| GBCLOFCM_1 | 3911011 | 3909875 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| GBCLOFCM_1 | 4024744 | 4023875 | pdxS | 3.00e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| GBCLOFCM_1 | 2379787 | 2379011 | CodY | 3.28e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| GBCLOFCM_1 | 679816 | 679247 | ClpP | 2.43e-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. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| GBCLOFCM_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 |
|---|---|---|---|---|---|
| GBCLOFCM_1 | 2722924 | 2750084 | False | Myoviridae | VOG0753, VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG3890, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
Phigaro v2.4.0 (Database: Jan. 2024 release)