Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 9 | 18.03 |
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. |
|---|---|---|---|---|---|---|---|---|
| APGMFHAH_39 | 70077 | 70670 | tmrB | ARO:3003059 | tmrB | 99.49 | 100.00 | AL009126.3 |
| APGMFHAH_40 | 15343 | 16197 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| APGMFHAH_31 | 15325 | 16245 | mphK | ARO:3004541 | mphK | 98.68 | 100.00 | CP010314.1 |
| APGMFHAH_59 | 13033 | 14679 | vmlR | ARO:3004476 | vmlR | 97.99 | 100.18 | NC_000964.3 |
| APGMFHAH_22 | 4594 | 4932 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| APGMFHAH_22 | 4277 | 4594 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| APGMFHAH_31 | 1991 | 3430 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.42 | JYFL01000006.1 |
| APGMFHAH_60 | 875 | 2077 | blt | ARO:3003006 | blt | 99.00 | 100.00 | L32599.1 |
| APGMFHAH_66 | 157 | 2727 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 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. |
|---|---|---|---|---|---|---|---|
| APGMFHAH_21 | 34875 | 36012 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 99.21 | 82.64 | X08034 |
| APGMFHAH_40 | 15343 | 16197 | aadK | Streptomycin | 98.83 | 100.00 | M26879 |
| APGMFHAH_31 | 15325 | 16245 | 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. |
|---|---|---|---|---|---|---|---|---|
| APGMFHAH_31 | 15337 | 16245 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.68 | 99.02 | WP_003246254.1 |
| APGMFHAH_40 | 15346 | 16197 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| APGMFHAH_59 | 13036 | 14679 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 97.99 | 100.00 | WP_003234144.1 |
| APGMFHAH_21 | 34875 | 36029 | tet(L) | tetracycline efflux MFS transporter Tet(L) | PARTIALX | 97.66 | 84.06 | WP_003242953.1 |
| APGMFHAH_21 | 37479 | 37997 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.75 | 100.00 | WP_003242546.1 |
| APGMFHAH_46 | 34768 | 37365 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.48 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| APGMFHAH_49 | 29638 | 30819 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| APGMFHAH_49 | 28013 | 29155 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| APGMFHAH_63 | 81014 | 81799 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.24 | 100.00 | NP_391080 |
| APGMFHAH_13 | 16662 | 18425 | dep/capD | 0.0 | Capsule | Immune modulation | 98.98 | 100.00 | NP_389723 |
| APGMFHAH_63 | 77189 | 78127 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.94 | 100.00 | NP_391077 |
| APGMFHAH_97 | 15140 | 15781 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 98.91 | 100.00 | NP_390062 |
| APGMFHAH_49 | 29174 | 29623 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| APGMFHAH_63 | 70033 | 77169 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.60 | 100.00 | NP_391076 |
| APGMFHAH_63 | 79792 | 80988 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.58 | 100.00 | NP_391079 |
| APGMFHAH_63 | 78155 | 79774 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.28 | 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 |
|---|---|---|---|---|---|---|---|---|
| APGMFHAH_17 | 31835 | 32971 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| APGMFHAH_20 | 4712 | 5581 | pdxS | 1.15e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| APGMFHAH_42 | 73972 | 74748 | CodY | 1.36e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| APGMFHAH_24 | 9996 | 10565 | ClpP | 6.52e-100 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| APGMFHAH_80 | 23341 | 23733 | spxA1 | 3.59e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| APGMFHAH_80 | 23341 | 23733 | spx | 2.14e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| APGMFHAH_65 | 34732 | 34490 | SpoVG | 5.30e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| APGMFHAH_30 | 1923 | 1726 | CspA | 1.63e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| APGMFHAH_29 | 5225 | 5419 | CspD | 2.23e-29 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| APGMFHAH_86 | 30012 | 29818 | CspB | 3.36e-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. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| APGMFHAH_1 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_2 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_3 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_4 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_5 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_6 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_7 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_8 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_9 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_10 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_11 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_12 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_13 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_14 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_16 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_17 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_18 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_19 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_20 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_21 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_22 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_23 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_24 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_25 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_26 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_27 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_28 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_29 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_30 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_31 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_32 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_33 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_34 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_35 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_36 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_37 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_38 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_39 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_40 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_41 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_42 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_43 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_44 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_45 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_46 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_48 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_49 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_50 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_51 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_52 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_53 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_54 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_55 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_56 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_57 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_58 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_59 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_60 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_61 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_62 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_63 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_64 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_65 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_66 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_67 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_68 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_69 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_72 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_73 | 1.0 | 0.0 | 1.0 |
| APGMFHAH_74 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_75 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_76 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_77 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_78 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_79 | 1.0 | 0.0 | 1.0 |
| APGMFHAH_80 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_81 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_82 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_83 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_84 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_85 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_86 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_87 | 1.0 | 0.0 | 1.0 |
| APGMFHAH_88 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_89 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_90 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_91 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_92 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_94 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_95 | 1.0 | 0.0 | 1.0 |
| APGMFHAH_96 | 1.0 | 0.0 | 1.0 |
| APGMFHAH_97 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_98 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_101 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_102 | 1.0 | 0.0 | 1.0 |
| APGMFHAH_103 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_104 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_105 | 0.0 | 1.0 | 0.0 |
| APGMFHAH_110 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| APGMFHAH_3 | 4690 | 15220 | True | Siphoviridae | VOG6587, VOG0189, VOG4566, VOG7581, VOG9667, VOG9667, VOG1563, VOG0275, VOG0275 |
| APGMFHAH_22 | 34396 | 61072 | False | Myoviridae | VOG0753, VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG6875, VOG0189, VOG3490 |
| APGMFHAH_35 | 512 | 19665 | False | Siphoviridae | VOG4581, VOG1886, VOG3607, VOG4556, VOG4568, VOG4553, VOG5361, VOG0204, VOG9583, VOG0704, VOG4586, VOG0541, VOG5910, VOG0801, VOG4772, VOG4626, VOG4612, VOG6243, VOG4705 |
Phigaro v2.4.0 (Database: Jan. 2024 release)