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. |
|---|---|---|---|---|---|---|---|---|
| GCPKJIJH_1 | 2595380 | 2596234 | aadK | ARO:3002627 | aadK | 98.24 | 100.00 | AL009126.1 |
| GCPKJIJH_1 | 2576710 | 2577912 | blt | ARO:3003006 | blt | 99.00 | 100.00 | L32599.1 |
| GCPKJIJH_1 | 2349595 | 2350764 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| GCPKJIJH_1 | 1371414 | 1371731 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| GCPKJIJH_1 | 1371076 | 1371414 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| GCPKJIJH_1 | 908605 | 911175 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| GCPKJIJH_1 | 579397 | 581043 | vmlR | ARO:3004476 | vmlR | 98.54 | 100.18 | NC_000964.3 |
| GCPKJIJH_1 | 338258 | 338851 | tmrB | ARO:3003059 | tmrB | 100.00 | 100.00 | AL009126.3 |
| GCPKJIJH_1 | 287781 | 289214 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.00 | JYFL01000006.1 |
| GCPKJIJH_1 | 274967 | 275887 | mphK | ARO:3004541 | mphK | 97.71 | 100.00 | CP010314.1 |
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. |
|---|---|---|---|---|---|---|---|
| GCPKJIJH_1 | 4056630 | 4058006 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 98.84 | 100.00 | X08034 |
| GCPKJIJH_1 | 2595382 | 2596234 | aadK | Streptomycin | 98.71 | 99.77 | M26879 |
| GCPKJIJH_1 | 274967 | 275887 | mph(K) | Spiramycin, Telithromycin | 97.72 | 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. |
|---|---|---|---|---|---|---|---|---|
| GCPKJIJH_1 | 4056633 | 4058006 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.69 | 100.00 | WP_003242953.1 |
| GCPKJIJH_1 | 579400 | 581043 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| GCPKJIJH_1 | 2595383 | 2596234 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| GCPKJIJH_1 | 274967 | 275884 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.71 | 100.00 | WP_003246254.1 |
| GCPKJIJH_1 | 4054159 | 4054677 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| GCPKJIJH_1 | 2052001 | 2054598 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.60 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| GCPKJIJH_1 | 3156394 | 3157332 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.68 | 100.00 | NP_391077 |
| GCPKJIJH_1 | 3571781 | 3572962 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| GCPKJIJH_1 | 3157360 | 3158979 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.26 | 100.00 | NP_391078 |
| GCPKJIJH_1 | 3160230 | 3161015 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.24 | 100.00 | NP_391080 |
| GCPKJIJH_1 | 2148148 | 2148789 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.22 | 100.00 | NP_390062 |
| GCPKJIJH_1 | 3570156 | 3571298 | capA | 0.0 | Capsule | Immune modulation | 98.95 | 100.00 | NP_391469 |
| GCPKJIJH_1 | 3159008 | 3160204 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.91 | 100.00 | NP_391079 |
| GCPKJIJH_1 | 2005059 | 2006822 | dep/capD | 0.0 | Capsule | Immune modulation | 98.87 | 100.00 | NP_389723 |
| GCPKJIJH_1 | 3149238 | 3156374 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.82 | 100.00 | NP_391076 |
| GCPKJIJH_1 | 3571317 | 3571766 | capC | 0.0 | Capsule | Immune modulation | 98.67 | 100.00 | 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 |
|---|---|---|---|---|---|---|---|---|
| GCPKJIJH_1 | 132398 | 133534 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| GCPKJIJH_1 | 18665 | 19534 | pdxS | 3.03e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| GCPKJIJH_1 | 1681281 | 1682057 | CodY | 3.31e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| GCPKJIJH_1 | 3422530 | 3423099 | ClpP | 2.46e-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 |
|---|---|---|---|
| GCPKJIJH_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 |
|---|---|---|---|---|---|
| GCPKJIJH_1 | 626914 | 636077 | False | Siphoviridae | VOG0275, VOG4602, VOG4662, VOG9667, VOG9667, VOG0650, VOG4552, VOG4600, VOG1309, VOG4566 |
| GCPKJIJH_1 | 641384 | 664153 | False | Siphoviridae | VOG0198, VOG7983, VOG0796, VOG10227, VOG0691, VOG0692, VOG9317, VOG4572, VOG2621, VOG0695, VOG0696, VOG0697, VOG0698, VOG10044, VOG0701, VOG9745, VOG4605, VOG4599, VOG5535, VOG10940, VOG0753, VOG0136, VOG4574, VOG2703, VOG9093 |
| GCPKJIJH_1 | 1314032 | 1341596 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG4612, VOG4705 |
| GCPKJIJH_1 | 2527770 | 2558033 | False | Myoviridae | VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG9315, VOG0796, VOG7060, VOG4673, VOG4567, VOG4693, VOG0189 |
Phigaro v2.4.0 (Database: Jan. 2024 release)