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. |
|---|---|---|---|---|---|---|---|---|
| HCIMJFIJ_1 | 2574255 | 2575109 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| HCIMJFIJ_1 | 2557186 | 2558388 | blt | ARO:3003006 | blt | 99.00 | 100.00 | L32599.1 |
| HCIMJFIJ_1 | 2383926 | 2385095 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| HCIMJFIJ_1 | 1345180 | 1345497 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| HCIMJFIJ_1 | 1344842 | 1345180 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| HCIMJFIJ_1 | 883560 | 886130 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.53 | 100.00 | AL009126.3 |
| HCIMJFIJ_1 | 584931 | 586574 | vmlR | ARO:3004476 | vmlR | 98.35 | 100.00 | NC_000964.3 |
| HCIMJFIJ_1 | 333038 | 333631 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| HCIMJFIJ_1 | 321434 | 322084 | Streptococcus suis chloramphenicol acetyltransferase | ARO:3004455 | Ssui_ACT_CHL | 94.91 | 100.00 | AB080798.1 |
| HCIMJFIJ_1 | 280173 | 281606 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.00 | JYFL01000006.1 |
| HCIMJFIJ_1 | 267360 | 268280 | mphK | ARO:3004541 | mphK | 99.02 | 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. |
|---|---|---|---|---|---|---|---|
| HCIMJFIJ_1 | 321434 | 322084 | cat(pC194) | Chloramphenicol | 100.00 | 100.00 | NC_002013 |
| HCIMJFIJ_1 | 267360 | 268280 | mph(K) | Spiramycin, Telithromycin | 99.35 | 100.00 | NC_000964 |
| HCIMJFIJ_1 | 2574255 | 2575109 | aadK | Streptomycin | 98.71 | 100.00 | M26879 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| HCIMJFIJ_1 | 321434 | 322081 | catA | type A-9 chloramphenicol O-acetyltransferase | EXACTX | 100.00 | 100.00 | WP_001010387.1 |
| HCIMJFIJ_1 | 267360 | 268277 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.02 | 100.00 | WP_003246254.1 |
| HCIMJFIJ_1 | 2574258 | 2575109 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| HCIMJFIJ_1 | 584934 | 586574 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.35 | 100.00 | WP_003234144.1 |
| HCIMJFIJ_1 | 4056541 | 4057059 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 94.22 | 100.00 | WP_003242546.1 |
| HCIMJFIJ_1 | 2032794 | 2035391 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.65 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| HCIMJFIJ_1 | 3556745 | 3557926 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| HCIMJFIJ_1 | 3133899 | 3134684 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.75 | 100.00 | NP_391080 |
| HCIMJFIJ_1 | 2130990 | 2131631 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.69 | 100.00 | NP_390062 |
| HCIMJFIJ_1 | 3132677 | 3133873 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.33 | 100.00 | NP_391079 |
| HCIMJFIJ_1 | 1978550 | 1980313 | dep/capD | 0.0 | Capsule | Immune modulation | 99.32 | 100.00 | NP_389723 |
| HCIMJFIJ_1 | 3556281 | 3556730 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| HCIMJFIJ_1 | 3555120 | 3556262 | capA | 0.0 | Capsule | Immune modulation | 98.78 | 100.00 | NP_391469 |
| HCIMJFIJ_1 | 3122907 | 3130043 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.74 | 100.00 | NP_391076 |
| HCIMJFIJ_1 | 3130063 | 3131001 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.40 | 100.00 | NP_391077 |
| HCIMJFIJ_1 | 3131029 | 3132648 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.41 | 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 |
|---|---|---|---|---|---|---|---|---|
| HCIMJFIJ_1 | 132417 | 133553 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| HCIMJFIJ_1 | 18602 | 19471 | pdxS | 3.03e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| HCIMJFIJ_1 | 1656611 | 1657387 | CodY | 3.31e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| HCIMJFIJ_1 | 3397490 | 3398059 | 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 |
|---|---|---|---|
| HCIMJFIJ_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 |
|---|---|---|---|---|---|
| HCIMJFIJ_1 | 1288980 | 1315292 | 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 |
| HCIMJFIJ_1 | 2283154 | 2307574 | False | Siphoviridae | VOG4873, VOG2352, VOG1030, VOG0676, VOG1093, VOG5543, VOG4877, VOG8598, VOG0052, VOG4551, VOG0025, VOG0189, VOG6168, VOG10230, VOG0641, VOG0565, VOG4599, VOG4605, VOG4545, VOG5716 |
Phigaro v2.4.0 (Database: Jan. 2024 release)