Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 10 | 10 | 9 | 16.76 |
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. |
|---|---|---|---|---|---|---|---|---|
| MPHLCAIF_5 | 40862 | 41782 | mphK | ARO:3004541 | mphK | 98.68 | 100.00 | CP010314.1 |
| MPHLCAIF_42 | 40583 | 40921 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| MPHLCAIF_42 | 40266 | 40583 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| MPHLCAIF_5 | 27528 | 28967 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.42 | JYFL01000006.1 |
| MPHLCAIF_9 | 27309 | 29879 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.53 | 100.00 | AL009126.3 |
| MPHLCAIF_32 | 23943 | 24797 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| MPHLCAIF_32 | 6846 | 8048 | blt | ARO:3003006 | blt | 98.00 | 100.00 | L32599.1 |
| MPHLCAIF_75 | 5740 | 7386 | vmlR | ARO:3004476 | vmlR | 98.36 | 100.18 | NC_000964.3 |
| MPHLCAIF_16 | 872 | 1465 | tmrB | ARO:3003059 | tmrB | 99.49 | 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. |
|---|---|---|---|---|---|---|---|
| MPHLCAIF_32 | 23943 | 24797 | aadK | Streptomycin | 98.83 | 100.00 | M26879 |
| MPHLCAIF_5 | 40862 | 41782 | mph(K) | Spiramycin, Telithromycin | 98.05 | 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. |
|---|---|---|---|---|---|---|---|---|
| MPHLCAIF_5 | 40874 | 41782 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.68 | 99.02 | WP_003246254.1 |
| MPHLCAIF_32 | 23946 | 24797 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| MPHLCAIF_75 | 5743 | 7386 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.36 | 100.00 | WP_003234144.1 |
| MPHLCAIF_34 | 51033 | 51551 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.75 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| MPHLCAIF_6 | 253643 | 254824 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| MPHLCAIF_38 | 36030 | 36815 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.49 | 100.00 | NP_391080 |
| MPHLCAIF_6 | 255307 | 256449 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| MPHLCAIF_38 | 25038 | 32174 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.30 | 100.00 | NP_391076 |
| MPHLCAIF_89 | 1395 | 3158 | dep/capD | 0.0 | Capsule | Immune modulation | 99.04 | 100.00 | NP_389723 |
| MPHLCAIF_38 | 32194 | 33132 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.04 | 100.00 | NP_391077 |
| MPHLCAIF_38 | 34808 | 36004 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.00 | 100.00 | NP_391079 |
| MPHLCAIF_21 | 32664 | 33305 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 98.91 | 100.00 | NP_390062 |
| MPHLCAIF_6 | 254839 | 255288 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| MPHLCAIF_38 | 33160 | 34779 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 96.73 | 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 |
|---|---|---|---|---|---|---|---|---|
| MPHLCAIF_18 | 27996 | 26860 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| MPHLCAIF_55 | 4537 | 5406 | pdxS | 1.99e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| MPHLCAIF_19 | 93659 | 92883 | CodY | 1.98e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| MPHLCAIF_27 | 4348 | 4917 | ClpP | 1.29e-100 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| MPHLCAIF_52 | 23284 | 23676 | spxA1 | 4.12e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| MPHLCAIF_52 | 23284 | 23676 | spx | 2.46e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| MPHLCAIF_39 | 20779 | 21021 | SpoVG | 7.53e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| MPHLCAIF_50 | 13882 | 14079 | CspA | 2.34e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| MPHLCAIF_21 | 44535 | 44729 | CspD | 1.09e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| MPHLCAIF_46 | 12463 | 12657 | CspB | 4.09e-28 | cold shock protein | 83.08 | 98.48 | 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. |
|---|---|---|---|---|---|---|
| MPHLCAIF_17 | 4907 | 5074 | Col(SD853) | 168 / 194 | 86.90 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| MPHLCAIF_1 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_2 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_3 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_4 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_5 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_6 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_7 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_8 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_9 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_10 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_11 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_12 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_13 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_14 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_15 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_16 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_17 | 1.0 | 0.0 | 1.0 |
| MPHLCAIF_18 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_19 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_20 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_21 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_22 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_23 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_26 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_27 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_28 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_29 | 1.0 | 0.0 | 1.0 |
| MPHLCAIF_30 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_31 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_32 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_33 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_34 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_35 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_36 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_37 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_38 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_39 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_40 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_41 | 1.0 | 0.0 | 1.0 |
| MPHLCAIF_42 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_44 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_45 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_46 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_47 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_48 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_49 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_50 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_51 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_52 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_53 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_54 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_55 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_56 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_57 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_58 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_59 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_60 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_61 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_62 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_63 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_64 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_65 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_66 | 1.0 | 0.0 | 1.0 |
| MPHLCAIF_67 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_68 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_69 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_70 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_71 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_72 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_73 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_74 | 1.0 | 0.0 | 1.0 |
| MPHLCAIF_75 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_76 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_77 | 1.0 | 0.0 | 1.0 |
| MPHLCAIF_80 | 1.0 | 0.0 | 1.0 |
| MPHLCAIF_82 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_83 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_86 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_87 | 1.0 | 0.0 | 1.0 |
| MPHLCAIF_89 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_90 | 0.0 | 1.0 | 0.0 |
| MPHLCAIF_91 | 1.0 | 0.0 | 1.0 |
| MPHLCAIF_92 | 1.0 | 0.0 | 1.0 |
| MPHLCAIF_95 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| MPHLCAIF_23 | 4465 | 14995 | True | Siphoviridae | VOG6587, VOG0189, VOG4566, VOG7581, VOG9667, VOG9667, VOG1563, VOG0275, VOG0275 |
| MPHLCAIF_42 | 70385 | 97068 | False | Myoviridae | VOG0753, VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4843, VOG0189, VOG3490 |
Phigaro v2.4.0 (Database: Jan. 2024 release)