Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 4 | 16.12 |
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. |
|---|---|---|---|---|---|---|---|---|
| MLCLFFEC_1 | 2613924 | 2614778 | aadK | ARO:3002627 | aadK | 97.54 | 100.00 | AL009126.1 |
| MLCLFFEC_1 | 2594751 | 2595953 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
| MLCLFFEC_1 | 2368114 | 2369283 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| MLCLFFEC_1 | 1390343 | 1390660 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| MLCLFFEC_1 | 1390005 | 1390343 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| MLCLFFEC_1 | 893382 | 895952 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| MLCLFFEC_1 | 591382 | 593025 | vmlR | ARO:3004476 | vmlR | 98.35 | 100.00 | NC_000964.3 |
| MLCLFFEC_1 | 286733 | 288166 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.00 | JYFL01000006.1 |
| MLCLFFEC_1 | 273917 | 274837 | 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. |
|---|---|---|---|---|---|---|---|
| MLCLFFEC_1 | 4163038 | 4164414 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 100.00 | 100.00 | X08034 |
| MLCLFFEC_1 | 2613926 | 2614778 | aadK | Streptomycin | 98.48 | 99.77 | M26879 |
| MLCLFFEC_1 | 273917 | 274837 | mph(K) | Spiramycin, Telithromycin | 97.50 | 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. |
|---|---|---|---|---|---|---|---|---|
| MLCLFFEC_1 | 4163041 | 4164414 | tet(L) | tetracycline efflux MFS transporter Tet(L) | EXACTX | 100.00 | 100.00 | WP_003242953.1 |
| MLCLFFEC_1 | 591385 | 593025 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.35 | 100.00 | WP_003234144.1 |
| MLCLFFEC_1 | 273917 | 274834 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.71 | 100.00 | WP_003246254.1 |
| MLCLFFEC_1 | 2613927 | 2614778 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.54 | 100.00 | WP_003229862.1 |
| MLCLFFEC_1 | 4160521 | 4161039 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 89.60 | 100.00 | WP_003242546.1 |
| MLCLFFEC_1 | 2064358 | 2066955 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.40 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| MLCLFFEC_1 | 2168926 | 2169567 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 100.00 | 100.00 | NP_390062 |
| MLCLFFEC_1 | 3669689 | 3670870 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| MLCLFFEC_1 | 2014333 | 2016096 | dep/capD | 0.0 | Capsule | Immune modulation | 99.49 | 100.00 | NP_389723 |
| MLCLFFEC_1 | 3218817 | 3219602 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| MLCLFFEC_1 | 3214981 | 3215919 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391077 |
| MLCLFFEC_1 | 3217595 | 3218791 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.17 | 100.00 | NP_391079 |
| MLCLFFEC_1 | 3207827 | 3214961 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.06 | 99.97 | NP_391076 |
| MLCLFFEC_1 | 3668064 | 3669206 | capA | 0.0 | Capsule | Immune modulation | 98.95 | 100.00 | NP_391469 |
| MLCLFFEC_1 | 3669225 | 3669674 | capC | 0.0 | Capsule | Immune modulation | 98.67 | 100.00 | NP_391470 |
| MLCLFFEC_1 | 3215947 | 3217566 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.52 | 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 |
|---|---|---|---|---|---|---|---|---|
| MLCLFFEC_1 | 132399 | 133535 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| MLCLFFEC_1 | 18665 | 19534 | pdxS | 3.11e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| MLCLFFEC_1 | 1700238 | 1701014 | CodY | 3.40e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| MLCLFFEC_1 | 3508335 | 3508904 | ClpP | 2.52e-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 |
|---|---|---|---|
| MLCLFFEC_1 | 0.0 | 1.0 | 0.0 |
| MLCLFFEC_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 |
|---|---|---|---|---|---|
| MLCLFFEC_1 | 1253544 | 1274670 | False | Siphoviridae | VOG5574, VOG0198, VOG7983, VOG0796, VOG10227, VOG0691, VOG0692, VOG9317, VOG4572, VOG2621, VOG0695, VOG0696, VOG0697, VOG0698, VOG10044, VOG0701, VOG9745, VOG4605, VOG4599, VOG5535, VOG10940, VOG0641 |
| MLCLFFEC_1 | 1333291 | 1360195 | False | Myoviridae | VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
| MLCLFFEC_1 | 2546283 | 2576132 | False | Myoviridae | VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG9315, VOG0796, VOG4673, VOG4693, VOG0189, VOG11060, VOG1309 |
| MLCLFFEC_1 | 2791591 | 2815206 | False | Myoviridae | VOG0221, VOG6116, VOG6422, VOG4574, VOG0641, VOG4705, VOG3390, VOG7718, VOG4845, VOG4691, VOG4550, VOG0573, VOG1348, VOG1433, VOG1956, VOG6163, VOG4699, VOG1352, VOG1883, VOG1881, VOG1353, VOG4623, VOG4564, VOG4553, VOG4555 |
| MLCLFFEC_1 | 2823456 | 2826065 | False | Myoviridae | VOG0189, VOG5263 |
| MLCLFFEC_1 | 3379625 | 3404487 | False | Siphoviridae | VOG3490, VOG6613, VOG4707, VOG0641, VOG4705, VOG3390, VOG4612, VOG4626, VOG4619, VOG0801, VOG6163, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG4553, VOG4568, VOG4556, VOG4544, VOG4581, VOG4841 |
| MLCLFFEC_1 | 3411265 | 3419029 | False | Siphoviridae | VOG3622, VOG9667, VOG9667, VOG1563, VOG0275 |
| MLCLFFEC_2 | 6242 | 16931 | False | Siphoviridae | VOG5852, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG4553, VOG4568, VOG4556, VOG1886, VOG5819, VOG4581 |
| MLCLFFEC_2 | 40745 | 61088 | False | Siphoviridae | VOG0025, VOG4551, VOG0918, VOG1574, VOG5292, VOG4549, VOG2725, VOG3851, VOG9332, VOG2352, VOG4714, VOG4561, VOG1198, VOG0397, VOG2352, VOG11080 |
Phigaro v2.4.0 (Database: Jan. 2024 release)