Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 3 | 1 | 4 | 5.10 |
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. |
|---|---|---|---|---|---|---|---|---|
| LLHMNMKA_1 | 3020928 | 3021977 | clbA | ARO:3002814 | clbA | 97.42 | 100.00 | CP006845.1 |
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. |
|---|---|---|---|---|---|---|---|
| LLHMNMKA_1 | 3020928 | 3021963 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 87.64 | 98.67 | KR610408 |
| LLHMNMKA_1 | 1451756 | 1453132 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 86.64 | 100.00 | X08034 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| LLHMNMKA_1 | 3020928 | 3021971 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 97.70 | 99.71 | WP_012116915.1 |
| LLHMNMKA_1 | 1451756 | 1453126 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 86.43 | 99.78 | WP_003242953.1 |
| LLHMNMKA_1 | 1451025 | 1451543 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 80.35 | 100.00 | WP_003242546.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| LLHMNMKA_1 | 1666715 | 1667896 | capB | 0.0 | Capsule | Immune modulation | 82.29 | 99.66 | NP_391471 |
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 |
|---|---|---|---|---|---|---|---|---|
| LLHMNMKA_1 | 3736858 | 3737994 | tufA | 0.0 | elongation factor Tu | 86.54 | 95.69 | AHM69299 |
| LLHMNMKA_1 | 3868590 | 3869459 | pdxS | 2.13e-150 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| LLHMNMKA_1 | 331115 | 330339 | CodY | 4.65e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| LLHMNMKA_1 | 2059655 | 2060527 | lipA (SAUSA300_0829) | 1.26e-161 | lipoic acid synthetase | 80.82 | 95.41 | ABD22039 |
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 |
|---|---|---|---|
| LLHMNMKA_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 |
|---|---|---|---|---|---|
| LLHMNMKA_1 | 703365 | 729124 | False | Myoviridae | VOG0136, VOG0753, VOG4705, VOG3390, VOG4612, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG7947, VOG3892, VOG3891, VOG3890, VOG10055, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189 |
| LLHMNMKA_1 | 1899259 | 1923924 | False | Siphoviridae | VOG6242, VOG0198, VOG0275, VOG7884, VOG0531, VOG4841, VOG4581, VOG4544, VOG4556, VOG4568, VOG4553, VOG0204, VOG4589, VOG0704, VOG4586, VOG0541, VOG6163, VOG0801, VOG4619, VOG4660, VOG4612, VOG3390, VOG4705, VOG0641 |
| LLHMNMKA_1 | 3532606 | 3576411 | False | Siphoviridae | VOG3490, VOG10230, VOG0136, VOG0753, VOG5535, VOG4599, VOG4605, VOG4545, VOG1323, VOG0725, VOG0799, VOG0724, VOG5660, VOG0816, VOG4623, VOG3480, VOG1329, VOG5361, VOG4555, VOG4564, VOG0720, VOG10227, VOG0796, VOG4972, VOG3631, VOG5447, VOG4376, VOG10116, VOG0044, VOG0102, VOG0397, VOG8569, VOG5969, VOG4694, VOG1336, VOG0536, VOG0586, VOG0189, VOG11060, VOG0186, VOG8233, VOG4552, VOG0650, VOG4603, VOG9667 |
Phigaro v2.4.0 (Database: Jan. 2024 release)