Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 6 | 1 | 4 | 7.28 |
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. |
|---|---|---|---|---|---|---|---|---|
| HMJPCLEA_12 | 644610 | 645257 | Alkalihalobacillus clausii chloramphenicol acetyltransferase | ARO:3004452 | Acla_ACT_CHL | 88.21 | 94.30 | AY238971.1 |
| HMJPCLEA_23 | 418488 | 419412 | BCL-1 | ARO:3004749 | BCL-1 | 100.00 | 98.05 | EF540343.1 |
| HMJPCLEA_23 | 415323 | 416093 | ANT(4')-Ib | ARO:3003905 | ANT(4')-Ib | 99.22 | 100.00 | EF540343.1 |
| HMJPCLEA_45 | 277590 | 278435 | Erm(34) | ARO:3000600 | Erm(34) | 96.80 | 100.00 | AY234334.1 |
| HMJPCLEA_56 | 206186 | 207238 | clbC | ARO:3002816 | clbC | 100.00 | 100.00 | AP006627.1 |
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. |
|---|---|---|---|---|---|---|---|
| HMJPCLEA_23 | 415323 | 416093 | ant(4')-Ib | Amikacin, Tobramycin, Isepamicin, Dibekacin | 99.09 | 100.00 | AJ506108 |
| HMJPCLEA_12 | 644579 | 645255 | cat | Chloramphenicol | 97.08 | 98.40 | AY238971 |
| HMJPCLEA_45 | 277597 | 278435 | erm(34) | Erythromycin, Lincomycin, Clindamycin, Quinupristin, Pristinamycin IA, Virginiamycin S | 95.47 | 99.17 | AY234334 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| HMJPCLEA_23 | 418506 | 419408 | blaBCL-1 | class A beta-lactamase BCL-1 | ALLELEX | 100.00 | 100.00 | WP_065825670.1 |
| HMJPCLEA_56 | 206186 | 207235 | clbB | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbB | EXACTX | 100.00 | 100.00 | WP_011245929.1 |
| HMJPCLEA_12 | 644613 | 645257 | catA | type A-10 chloramphenicol O-acetyltransferase | BLASTX | 99.53 | 100.00 | WP_035203840.1 |
| HMJPCLEA_23 | 415323 | 416090 | aadD2 | aminoglycoside O-nucleotidyltransferase ANT(4')-Ib | BLASTX | 99.22 | 100.00 | WP_035202393.1 |
| HMJPCLEA_45 | 277596 | 278435 | erm(34) | 23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(34) | BLASTX | 97.14 | 99.64 | WP_063844504.1 |
| HMJPCLEA_34 | 56165 | 58756 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.14 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| HMJPCLEA_1 | 382517 | 383167 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.85 | 100.00 | WP_011247375 |
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 |
|---|---|---|---|---|---|---|---|---|
| HMJPCLEA_5 | 32637 | 33773 | tufA | 0.0 | elongation factor Tu | 87.33 | 95.69 | AHM69299 |
| HMJPCLEA_4 | 42589 | 42347 | SpoVG | 2.57e-37 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| HMJPCLEA_67 | 29919 | 29725 | CspA | 1.20e-29 | cold shock protein | 86.15 | 98.48 | CAA62903 |
| HMJPCLEA_2 | 163199 | 163008 | msaB | 5.16e-26 | cold shock protein | 81.25 | 96.97 | ABD22065 |
| HMJPCLEA_2 | 163196 | 163008 | CspB | 4.43e-25 | cold shock protein | 80.95 | 95.45 | CAD00094 |
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 |
|---|---|---|---|
| HMJPCLEA_1 | 0.0 | 1.0 | 0.0 |
| HMJPCLEA_2 | 0.0 | 1.0 | 0.0 |
| HMJPCLEA_3 | 0.0 | 1.0 | 0.0 |
| HMJPCLEA_4 | 0.0 | 1.0 | 0.0 |
| HMJPCLEA_5 | 0.0 | 1.0 | 0.0 |
| HMJPCLEA_6 | 0.0 | 1.0 | 0.0 |
| HMJPCLEA_7 | 1.0 | 0.0 | 1.0 |
| HMJPCLEA_8 | 1.0 | 0.0 | 1.0 |
| HMJPCLEA_10 | 1.0 | 0.0 | 1.0 |
| HMJPCLEA_12 | 0.0 | 1.0 | 0.0 |
| HMJPCLEA_23 | 0.0 | 1.0 | 0.0 |
| HMJPCLEA_34 | 0.0 | 1.0 | 0.0 |
| HMJPCLEA_45 | 0.0 | 1.0 | 0.0 |
| HMJPCLEA_56 | 0.0 | 1.0 | 0.0 |
| HMJPCLEA_67 | 0.0 | 1.0 | 0.0 |
| HMJPCLEA_68 | 0.0 | 1.0 | 0.0 |
| HMJPCLEA_69 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| HMJPCLEA_1 | 15274 | 51419 | False | Siphoviridae | VOG0550, VOG10137, VOG4841, VOG4581, VOG4544, VOG5051, VOG4556, VOG4568, VOG4553, VOG7168, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG4910, VOG0801, VOG4660, VOG5384, VOG3390, VOG4705, VOG7958, VOG4619, VOG0217, VOG0136, VOG8236, VOG3514, VOG6116, VOG0866, VOG9231, VOG5532, VOG1819, VOG6414, VOG6931, VOG0535, VOG1936, VOG6545, VOG4606, VOG2752 |
Phigaro v2.4.0 (Database: Jan. 2024 release)