Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 11 | 10 | 9 | 17.38 |
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. |
|---|---|---|---|---|---|---|---|---|
| CJMLLOPC_57 | 104901 | 106340 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.42 | JYFL01000006.1 |
| CJMLLOPC_42 | 29004 | 30650 | vmlR | ARO:3004476 | vmlR | 98.18 | 100.18 | NC_000964.3 |
| CJMLLOPC_7 | 15261 | 16112 | aadK | ARO:3002627 | aadK | 98.24 | 99.65 | AL009126.1 |
| CJMLLOPC_22 | 9348 | 11918 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| CJMLLOPC_19 | 6477 | 6815 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| CJMLLOPC_19 | 6160 | 6477 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| CJMLLOPC_76 | 1106 | 1699 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| CJMLLOPC_73 | 733 | 1935 | 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. |
|---|---|---|---|---|---|---|---|
| CJMLLOPC_7 | 15261 | 16112 | aadK | Streptomycin | 98.48 | 99.65 | M26879 |
| CJMLLOPC_57 | 92089 | 93008 | mph(K) | Spiramycin, Telithromycin | 97.72 | 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. |
|---|---|---|---|---|---|---|---|---|
| CJMLLOPC_7 | 15264 | 16112 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| CJMLLOPC_42 | 29004 | 30647 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.18 | 100.00 | WP_003234144.1 |
| CJMLLOPC_25 | 37293 | 37811 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 93.06 | 100.00 | WP_003242546.1 |
| CJMLLOPC_24 | 135464 | 138061 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| CJMLLOPC_30 | 112271 | 113452 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| CJMLLOPC_14 | 36236 | 37021 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| CJMLLOPC_30 | 113935 | 115077 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| CJMLLOPC_24 | 82523 | 84286 | dep/capD | 0.0 | Capsule | Immune modulation | 99.09 | 100.00 | NP_389723 |
| CJMLLOPC_14 | 32411 | 33349 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.94 | 100.00 | NP_391077 |
| CJMLLOPC_30 | 113467 | 113916 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| CJMLLOPC_14 | 25255 | 32391 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.57 | 100.00 | NP_391076 |
| CJMLLOPC_14 | 35014 | 36210 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.50 | 100.00 | NP_391079 |
| CJMLLOPC_27 | 29033 | 29674 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 97.66 | 100.00 | NP_390062 |
| CJMLLOPC_14 | 33377 | 34996 | 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 |
|---|---|---|---|---|---|---|---|---|
| CJMLLOPC_38 | 31862 | 32998 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| CJMLLOPC_29 | 4382 | 5251 | pdxS | 1.14e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| CJMLLOPC_6 | 116349 | 117125 | CodY | 1.85e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| CJMLLOPC_8 | 124819 | 125388 | ClpP | 9.56e-100 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| CJMLLOPC_45 | 28853 | 28461 | spxA1 | 3.32e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| CJMLLOPC_45 | 28853 | 28461 | spx | 1.98e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| CJMLLOPC_34 | 34770 | 34528 | SpoVG | 6.22e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| CJMLLOPC_42 | 74438 | 74241 | CspA | 3.44e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| CJMLLOPC_27 | 40904 | 41098 | CspD | 7.79e-29 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| CJMLLOPC_58 | 31552 | 31358 | CspB | 7.42e-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. |
|---|---|---|---|---|---|---|
| CJMLLOPC_35 | 5771 | 5931 | Col(SD853) | 161 / 194 | 83.23 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| CJMLLOPC_1 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_2 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_3 | 1.0 | 0.0 | 1.0 |
| CJMLLOPC_4 | 1.0 | 0.0 | 1.0 |
| CJMLLOPC_5 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_6 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_7 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_8 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_9 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_10 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_11 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_12 | 1.0 | 0.0 | 1.0 |
| CJMLLOPC_14 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_15 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_16 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_17 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_18 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_19 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_20 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_21 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_22 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_23 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_24 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_25 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_26 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_27 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_28 | 1.0 | 0.0 | 1.0 |
| CJMLLOPC_29 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_30 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_31 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_32 | 1.0 | 0.0 | 1.0 |
| CJMLLOPC_33 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_34 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_35 | 1.0 | 0.0 | 1.0 |
| CJMLLOPC_36 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_37 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_38 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_39 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_40 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_41 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_42 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_43 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_44 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_45 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_46 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_47 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_48 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_49 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_50 | 1.0 | 0.0 | 1.0 |
| CJMLLOPC_51 | 1.0 | 0.0 | 1.0 |
| CJMLLOPC_52 | 1.0 | 0.0 | 1.0 |
| CJMLLOPC_53 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_54 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_55 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_56 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_57 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_58 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_59 | 1.0 | 0.0 | 1.0 |
| CJMLLOPC_60 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_61 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_62 | 1.0 | 0.0 | 1.0 |
| CJMLLOPC_63 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_64 | 1.0 | 0.0 | 1.0 |
| CJMLLOPC_65 | 1.0 | 0.0 | 1.0 |
| CJMLLOPC_66 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_67 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_68 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_69 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_70 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_72 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_73 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_74 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_75 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_76 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_77 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_78 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_79 | 1.0 | 0.0 | 1.0 |
| CJMLLOPC_80 | 1.0 | 0.0 | 1.0 |
| CJMLLOPC_81 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_82 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_83 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_84 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_85 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_86 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_87 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_88 | 1.0 | 0.0 | 1.0 |
| CJMLLOPC_89 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_91 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_93 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_94 | 0.0 | 1.0 | 0.0 |
| CJMLLOPC_95 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| CJMLLOPC_8 | 237 | 22443 | False | Siphoviridae | VOG4705, VOG6243, VOG4612, VOG4626, VOG4772, VOG0801, VOG5910, VOG0541, VOG4586, VOG0704, VOG9583, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG3607, VOG1886, VOG4581, VOG0713, VOG4841, VOG0275 |
| CJMLLOPC_8 | 29263 | 36997 | True | Siphoviridae | VOG7581, VOG9667, VOG9667, VOG1563, VOG0275, VOG0275 |
| CJMLLOPC_9 | 15875 | 42375 | False | Myoviridae | VOG5826, VOG0221, VOG6116, VOG1301, VOG10547, VOG4574, VOG0136, VOG0753, VOG5008, VOG4705, VOG3390, VOG7718, VOG4845, VOG4691, VOG4550, VOG0573, VOG1348, VOG1433, VOG1956, VOG6163, VOG4699, VOG1352, VOG1883, VOG1881, VOG1353, VOG4623, VOG4564, VOG4553, VOG4555, VOG0720 |
| CJMLLOPC_19 | 36279 | 62964 | False | Myoviridae | VOG0753, VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490 |
Phigaro v2.4.0 (Database: Jan. 2024 release)