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. |
|---|---|---|---|---|---|---|---|---|
| CLFLPBHK_13 | 69204 | 70373 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
| CLFLPBHK_6 | 62274 | 62591 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| CLFLPBHK_6 | 61936 | 62274 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| CLFLPBHK_23 | 49995 | 51428 | lmrB | ARO:3002813 | lmrB | 99.16 | 100.00 | JYFL01000006.1 |
| CLFLPBHK_38 | 46431 | 47024 | tmrB | ARO:3003059 | tmrB | 100.00 | 100.00 | AL009126.3 |
| CLFLPBHK_29 | 28703 | 30346 | vmlR | ARO:3004476 | vmlR | 98.32 | 100.00 | NC_000964.3 |
| CLFLPBHK_72 | 27209 | 29779 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| CLFLPBHK_94 | 15822 | 16742 | mphK | ARO:3004541 | mphK | 98.68 | 100.00 | CP010314.1 |
| CLFLPBHK_41 | 7877 | 8728 | aadK | ARO:3002627 | aadK | 98.24 | 99.65 | AL009126.1 |
| CLFLPBHK_36 | 803 | 2005 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
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. |
|---|---|---|---|---|---|---|---|
| CLFLPBHK_41 | 7877 | 8728 | aadK | Streptomycin | 98.48 | 99.65 | M26879 |
| CLFLPBHK_94 | 15822 | 16742 | 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. |
|---|---|---|---|---|---|---|---|---|
| CLFLPBHK_94 | 15822 | 16730 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.68 | 99.02 | WP_003246254.1 |
| CLFLPBHK_41 | 7880 | 8728 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| CLFLPBHK_29 | 28703 | 30343 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 96.71 | 99.82 | WP_003234144.1 |
| CLFLPBHK_56 | 61816 | 62208 | satA | streptothricin N-acetyltransferase SatA | PARTIALX | 91.60 | 75.72 | WP_003242546.1 |
| CLFLPBHK_64 | 5353 | 7950 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| CLFLPBHK_108 | 2061 | 3242 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| CLFLPBHK_51 | 16170 | 16955 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| CLFLPBHK_108 | 436 | 1578 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| CLFLPBHK_64 | 59037 | 60800 | dep/capD | 0.0 | Capsule | Immune modulation | 98.98 | 100.00 | NP_389723 |
| CLFLPBHK_51 | 19842 | 20780 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.94 | 100.00 | NP_391077 |
| CLFLPBHK_14 | 74995 | 75636 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 98.91 | 100.00 | NP_390062 |
| CLFLPBHK_108 | 1597 | 2046 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| CLFLPBHK_51 | 16981 | 18177 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.75 | 100.00 | NP_391079 |
| CLFLPBHK_51 | 20800 | 27936 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.57 | 100.00 | NP_391076 |
| CLFLPBHK_51 | 18195 | 19814 | 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 |
|---|---|---|---|---|---|---|---|---|
| CLFLPBHK_18 | 35833 | 34697 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| CLFLPBHK_75 | 11250 | 10381 | pdxS | 1.11e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| CLFLPBHK_47 | 73983 | 74759 | CodY | 1.27e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| CLFLPBHK_1 | 97084 | 97653 | ClpP | 8.54e-100 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| CLFLPBHK_97 | 41547 | 41155 | spxA1 | 4.13e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| CLFLPBHK_97 | 41547 | 41155 | spx | 2.46e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| CLFLPBHK_27 | 20618 | 20860 | SpoVG | 6.46e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| CLFLPBHK_3 | 2026 | 1829 | CspA | 3.37e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| CLFLPBHK_14 | 86867 | 87061 | CspD | 1.01e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| CLFLPBHK_24 | 25027 | 25221 | CspB | 5.06e-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. |
|---|---|---|---|---|---|---|
| CLFLPBHK_84 | 5315 | 5478 | Col(SD853) | 164 / 194 | 87.20 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| CLFLPBHK_1 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_2 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_3 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_4 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_5 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_6 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_7 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_8 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_9 | 1.0 | 0.0 | 1.0 |
| CLFLPBHK_10 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_12 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_13 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_14 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_15 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_16 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_17 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_18 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_19 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_20 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_21 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_22 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_23 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_24 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_25 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_26 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_27 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_28 | 1.0 | 0.0 | 1.0 |
| CLFLPBHK_29 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_30 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_31 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_32 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_33 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_34 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_35 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_36 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_37 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_38 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_39 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_40 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_41 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_42 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_43 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_44 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_45 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_46 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_47 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_48 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_49 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_51 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_52 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_53 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_54 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_55 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_56 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_57 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_58 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_59 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_60 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_61 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_62 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_63 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_64 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_65 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_66 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_67 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_68 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_69 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_70 | 1.0 | 0.0 | 1.0 |
| CLFLPBHK_71 | 1.0 | 0.0 | 1.0 |
| CLFLPBHK_72 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_73 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_74 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_75 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_76 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_77 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_78 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_79 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_80 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_81 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_82 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_83 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_84 | 1.0 | 0.0 | 1.0 |
| CLFLPBHK_86 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_87 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_89 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_90 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_91 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_92 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_93 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_94 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_95 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_97 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_98 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_99 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_100 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_101 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_102 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_103 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_104 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_105 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_106 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_107 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_108 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_110 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_111 | 1.0 | 0.0 | 1.0 |
| CLFLPBHK_112 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_113 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_114 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_115 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_117 | 1.0 | 0.0 | 1.0 |
| CLFLPBHK_119 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_120 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_121 | 1.0 | 0.0 | 1.0 |
| CLFLPBHK_122 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_123 | 1.0 | 0.0 | 1.0 |
| CLFLPBHK_124 | 1.0 | 0.0 | 1.0 |
| CLFLPBHK_126 | 1.0 | 0.0 | 1.0 |
| CLFLPBHK_129 | 0.0 | 1.0 | 0.0 |
| CLFLPBHK_130 | 1.0 | 0.0 | 1.0 |
| CLFLPBHK_131 | 1.0 | 0.0 | 1.0 |
| CLFLPBHK_134 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| CLFLPBHK_1 | 4080 | 10495 | True | Siphoviridae | VOG1563, VOG0275, VOG0275 |
| CLFLPBHK_6 | 6309 | 32472 | False | Myoviridae | VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
| CLFLPBHK_18 | 4763 | 8289 | False | Unknown | VOG7060, VOG4606 |
| CLFLPBHK_35 | 10551 | 35896 | False | Siphoviridae | VOG6513, VOG0275, VOG4602, VOG9667, VOG9667, VOG0650, VOG4552, VOG4603, VOG8233, VOG0186, VOG4566, VOG0189, VOG4693, VOG1985, VOG0198, VOG0713, VOG4841, VOG4581, VOG1886, VOG0202, VOG4556, VOG4573, VOG4553, VOG5361, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541 |
Phigaro v2.4.0 (Database: Jan. 2024 release)