Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 9 | 10 | 9 | 16.19 |
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. |
|---|---|---|---|---|---|---|---|---|
| LALGDBBG_37 | 80291 | 80884 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| LALGDBBG_37 | 29800 | 31239 | lmrB | ARO:3002813 | lmrB | 98.74 | 100.42 | JYFL01000006.1 |
| LALGDBBG_50 | 16824 | 17993 | bmr | ARO:3003007 | bmr | 99.23 | 100.00 | M33768.1 |
| LALGDBBG_67 | 12920 | 14566 | vmlR | ARO:3004476 | vmlR | 98.18 | 100.18 | NC_000964.3 |
| LALGDBBG_36 | 4580 | 4918 | ykkC | ARO:3003063 | ykkC | 99.11 | 100.00 | AL009126.1 |
| LALGDBBG_36 | 4263 | 4580 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| LALGDBBG_108 | 5 | 2575 | 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. |
|---|---|---|---|---|---|---|---|
| LALGDBBG_37 | 16988 | 17907 | mph(K) | Spiramycin, Telithromycin | 97.61 | 99.89 | 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. |
|---|---|---|---|---|---|---|---|---|
| LALGDBBG_67 | 12920 | 14563 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.18 | 100.00 | WP_003234144.1 |
| LALGDBBG_78 | 5913 | 6299 | satA | streptothricin N-acetyltransferase SatA | INTERNAL_STOP | 86.05 | 74.57 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| LALGDBBG_68 | 1608 | 2750 | capA | 0.0 | Capsule | Immune modulation | 99.74 | 100.00 | NP_391469 |
| LALGDBBG_68 | 3233 | 4414 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| LALGDBBG_68 | 2769 | 3218 | capC | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391470 |
| LALGDBBG_13 | 72065 | 72706 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.53 | 100.00 | NP_390062 |
| LALGDBBG_58 | 6272 | 7057 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.98 | 100.00 | NP_391080 |
| LALGDBBG_2 | 71428 | 73191 | dep/capD | 0.0 | Capsule | Immune modulation | 98.75 | 100.00 | NP_389723 |
| LALGDBBG_58 | 9944 | 10882 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.72 | 100.00 | NP_391077 |
| LALGDBBG_58 | 10902 | 18038 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.46 | 100.00 | NP_391076 |
| LALGDBBG_58 | 7083 | 8279 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.41 | 100.00 | NP_391079 |
| LALGDBBG_58 | 8297 | 9916 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.35 | 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 |
|---|---|---|---|---|---|---|---|---|
| LALGDBBG_45 | 31677 | 32813 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| LALGDBBG_92 | 4262 | 5131 | pdxS | 1.94e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| LALGDBBG_42 | 60995 | 60219 | CodY | 1.35e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| LALGDBBG_53 | 37593 | 37024 | ClpP | 9.64e-100 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| LALGDBBG_44 | 21115 | 20723 | spxA1 | 3.91e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| LALGDBBG_44 | 21115 | 20723 | spx | 2.33e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| LALGDBBG_62 | 4352 | 4594 | SpoVG | 5.29e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| LALGDBBG_123 | 4352 | 4549 | CspA | 2.04e-33 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| LALGDBBG_13 | 60101 | 59907 | CspD | 5.41e-29 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| LALGDBBG_71 | 22461 | 22267 | CspB | 2.42e-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 |
|---|---|---|---|
| LALGDBBG_1 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_2 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_3 | 1.0 | 0.0 | 1.0 |
| LALGDBBG_5 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_6 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_7 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_8 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_9 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_10 | 1.0 | 0.0 | 1.0 |
| LALGDBBG_11 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_12 | 1.0 | 0.0 | 1.0 |
| LALGDBBG_13 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_14 | 1.0 | 0.0 | 1.0 |
| LALGDBBG_15 | 1.0 | 0.0 | 1.0 |
| LALGDBBG_17 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_18 | 1.0 | 0.0 | 1.0 |
| LALGDBBG_19 | 1.0 | 0.0 | 1.0 |
| LALGDBBG_20 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_21 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_22 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_24 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_25 | 1.0 | 0.0 | 1.0 |
| LALGDBBG_35 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_36 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_37 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_38 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_39 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_40 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_41 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_42 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_43 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_44 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_45 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_46 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_47 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_48 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_49 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_50 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_51 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_52 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_53 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_54 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_55 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_56 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_57 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_58 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_59 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_60 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_61 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_62 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_63 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_64 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_65 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_66 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_67 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_68 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_69 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_70 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_71 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_72 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_73 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_74 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_75 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_76 | 1.0 | 0.0 | 1.0 |
| LALGDBBG_77 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_78 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_79 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_80 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_81 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_82 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_83 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_84 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_85 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_86 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_87 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_88 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_89 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_90 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_91 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_92 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_93 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_94 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_95 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_96 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_97 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_98 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_99 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_100 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_101 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_102 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_103 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_104 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_105 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_106 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_107 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_108 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_109 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_110 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_111 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_112 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_113 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_114 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_115 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_116 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_117 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_118 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_119 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_120 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_121 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_122 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_123 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_124 | 1.0 | 0.0 | 1.0 |
| LALGDBBG_125 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_126 | 0.0 | 1.0 | 0.0 |
| LALGDBBG_127 | 1.0 | 0.0 | 1.0 |
| LALGDBBG_128 | 1.0 | 0.0 | 1.0 |
| LALGDBBG_129 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| LALGDBBG_36 | 34154 | 54918 | False | Myoviridae | VOG0136, VOG0753, VOG4705, VOG3390, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG9315, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
| LALGDBBG_47 | 30677 | 49766 | False | Siphoviridae | VOG0720, VOG4564, VOG4555, VOG1329, VOG5872, VOG4623, VOG0816, VOG5660, VOG0724, VOG0799, VOG0725, VOG4605, VOG4599 |
| LALGDBBG_64 | 58122 | 87038 | True | Siphoviridae | VOG10230, VOG8440, VOG4868, VOG9712, VOG5042, VOG3389, VOG4910, VOG9312, VOG8916, VOG0275, VOG7930, VOG8610, VOG4705, VOG3390, VOG7718, VOG5534, VOG6940, VOG9713, VOG9219, VOG5495, VOG6036, VOG9867, VOG7134 |
Phigaro v2.4.0 (Database: Jan. 2024 release)