Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 6 | 10 | 4 | 12.33 |
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. |
|---|---|---|---|---|---|---|---|---|
| CMLFMHIN_1 | 3859905 | 3862475 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| CMLFMHIN_1 | 3384287 | 3384625 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| CMLFMHIN_1 | 3383970 | 3384287 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| CMLFMHIN_1 | 2442937 | 2444106 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| CMLFMHIN_1 | 291058 | 291651 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
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. |
|---|---|---|---|---|---|---|---|
| CMLFMHIN_1 | 350526 | 351429 | mph(K) | Spiramycin, Telithromycin | 96.74 | 98.15 | 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. |
|---|---|---|---|---|---|---|---|---|
| CMLFMHIN_1 | 350529 | 351110 | mphK | macrolide 2'-phosphotransferase MphK | PARTIALX | 97.94 | 63.40 | WP_003246254.1 |
| CMLFMHIN_1 | 33789 | 34883 | vmlR | ABC-F type ribosomal protection protein VmlR | PARTIALX | 95.90 | 66.91 | WP_003234144.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| CMLFMHIN_1 | 2660236 | 2660877 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.69 | 100.00 | NP_390062 |
| CMLFMHIN_1 | 1639494 | 1640432 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.68 | 100.00 | NP_391077 |
| CMLFMHIN_1 | 1172188 | 1173369 | capB | 0.0 | Capsule | Immune modulation | 99.58 | 100.00 | NP_391471 |
| CMLFMHIN_1 | 1635811 | 1636596 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.49 | 100.00 | NP_391080 |
| CMLFMHIN_1 | 2828885 | 2830648 | dep/capD | 0.0 | Capsule | Immune modulation | 99.15 | 100.00 | NP_389723 |
| CMLFMHIN_1 | 1636622 | 1637818 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.00 | 100.00 | NP_391079 |
| CMLFMHIN_1 | 1637847 | 1639466 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.95 | 100.00 | NP_391078 |
| CMLFMHIN_1 | 1173852 | 1174994 | capA | 0.0 | Capsule | Immune modulation | 98.86 | 100.00 | NP_391469 |
| CMLFMHIN_1 | 1640452 | 1647588 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.60 | 100.00 | NP_391076 |
| CMLFMHIN_1 | 1173384 | 1173833 | capC | 0.0 | Capsule | Immune modulation | 98.44 | 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 |
|---|---|---|---|---|---|---|---|---|
| CMLFMHIN_1 | 517229 | 516093 | tufA | 0.0 | elongation factor Tu | 84.70 | 95.69 | AHM69299 |
| CMLFMHIN_1 | 631273 | 630404 | pdxS | 3.65e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| CMLFMHIN_1 | 3067012 | 3066236 | CodY | 3.39e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| CMLFMHIN_1 | 1322363 | 1321794 | ClpP | 2.51e-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. |
|---|---|---|---|---|---|---|
| CMLFMHIN_2 | 15141 | 15334 | Col(SD853) | 195 / 194 | 84.62 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| CMLFMHIN_1 | 0.0 | 1.0 | 0.0 |
| CMLFMHIN_2 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| CMLFMHIN_1 | 467709 | 483013 | False | Myoviridae | VOG0753, VOG7895, VOG7718, VOG0906, VOG4862, VOG4691, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG8483 |
| CMLFMHIN_1 | 1533463 | 1538559 | False | Siphoviridae | VOG0181, VOG0737, VOG0025, VOG1884, VOG0198 |
| CMLFMHIN_1 | 2068101 | 2096356 | False | Siphoviridae | VOG6809, VOG9498, VOG0198, VOG0713, VOG4841, VOG4581, VOG1886, VOG4556, VOG4568, VOG4553, VOG5361, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG5910, VOG6163, VOG6163, VOG0801, VOG4619, VOG4660, VOG4612, VOG3390, VOG4705, VOG0641, VOG4574 |
| CMLFMHIN_1 | 2241460 | 2270846 | False | Myoviridae | VOG4693, VOG9667, VOG2505, VOG6054, VOG4673, VOG0796, VOG10227, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4691, VOG4862 |
| CMLFMHIN_1 | 3414364 | 3440474 | False | Myoviridae | VOG4705, VOG5384, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4685, VOG4773, VOG10227, VOG9315, VOG0796, VOG5447, VOG4843, VOG0189, VOG3490, VOG9667 |
| CMLFMHIN_1 | 4127175 | 4146586 | False | Siphoviridae | VOG4707, VOG0136, VOG0753, VOG9091, VOG5535, VOG4599, VOG4605, VOG9745, VOG0701, VOG10044, VOG0698, VOG0697, VOG0696, VOG0695, VOG2621, VOG4572, VOG9317, VOG0692, VOG0691, VOG10227, VOG0796 |
| CMLFMHIN_1 | 4153455 | 4162962 | False | Siphoviridae | VOG0189, VOG4566, VOG1309, VOG4600, VOG4552, VOG0650, VOG9667, VOG9667, VOG4662, VOG4602 |
Phigaro v2.4.0 (Database: Jan. 2024 release)