Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 9 | 18.71 |
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. |
|---|---|---|---|---|---|---|---|---|
| CJHAPIJD_52 | 131870 | 132463 | tmrB | ARO:3003059 | tmrB | 100.00 | 100.00 | AL009126.3 |
| CJHAPIJD_3 | 112470 | 112787 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| CJHAPIJD_3 | 112132 | 112470 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| CJHAPIJD_52 | 81345 | 82784 | lmrB | ARO:3002813 | lmrB | 99.16 | 100.42 | JYFL01000006.1 |
| CJHAPIJD_41 | 79366 | 80535 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
| CJHAPIJD_52 | 68530 | 69396 | mphK | ARO:3004541 | mphK | 98.61 | 94.12 | CP010314.1 |
| CJHAPIJD_17 | 41368 | 42996 | vmlR | ARO:3004476 | vmlR | 99.08 | 99.09 | NC_000964.3 |
| CJHAPIJD_61 | 27402 | 29972 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| CJHAPIJD_33 | 13699 | 14553 | aadK | ARO:3002627 | aadK | 98.94 | 100.00 | AL009126.1 |
| CJHAPIJD_55 | 2353 | 3555 | 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. |
|---|---|---|---|---|---|---|---|
| CJHAPIJD_33 | 13701 | 14553 | aadK | Streptomycin | 98.94 | 99.77 | M26879 |
| CJHAPIJD_26 | 30168 | 31544 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 98.91 | 100.00 | D12567 |
| CJHAPIJD_52 | 68530 | 69450 | 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. |
|---|---|---|---|---|---|---|---|---|
| CJHAPIJD_17 | 41371 | 42996 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 99.08 | 98.90 | WP_003234144.1 |
| CJHAPIJD_33 | 13702 | 14553 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.94 | 100.00 | WP_003229862.1 |
| CJHAPIJD_26 | 30168 | 31541 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.91 | 100.00 | WP_063856081.1 |
| CJHAPIJD_52 | 68530 | 69447 | mphK | macrolide 2'-phosphotransferase MphK | INTERNAL_STOP | 98.04 | 100.00 | WP_003246254.1 |
| CJHAPIJD_26 | 33497 | 34015 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| CJHAPIJD_16 | 60854 | 63442 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.37 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| CJHAPIJD_32 | 35715 | 36500 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 100.00 | 100.00 | NP_391080 |
| CJHAPIJD_32 | 24723 | 31859 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.99 | 100.00 | NP_391076 |
| CJHAPIJD_32 | 31879 | 32817 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.89 | 100.00 | NP_391077 |
| CJHAPIJD_31 | 25777 | 26958 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| CJHAPIJD_32 | 32845 | 34464 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.57 | 100.00 | NP_391078 |
| CJHAPIJD_31 | 26973 | 27422 | capC | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391470 |
| CJHAPIJD_32 | 34493 | 35689 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.50 | 100.00 | NP_391079 |
| CJHAPIJD_63 | 54501 | 55142 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.22 | 100.00 | NP_390062 |
| CJHAPIJD_31 | 27441 | 28583 | capA | 0.0 | Capsule | Immune modulation | 99.21 | 100.00 | NP_391469 |
| CJHAPIJD_16 | 6473 | 8236 | dep/capD | 0.0 | Capsule | Immune modulation | 98.92 | 100.00 | NP_389723 |
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 |
|---|---|---|---|---|---|---|---|---|
| CJHAPIJD_24 | 31886 | 33022 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| CJHAPIJD_45 | 4286 | 5155 | pdxS | 1.10e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| CJHAPIJD_5 | 870 | 94 | CodY | 7.64e-126 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| CJHAPIJD_19 | 234508 | 235077 | ClpP | 2.16e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| CJHAPIJD_64 | 110843 | 111235 | spxA1 | 9.39e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| CJHAPIJD_64 | 110843 | 111235 | spx | 5.60e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| CJHAPIJD_29 | 20568 | 20810 | SpoVG | 7.50e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| CJHAPIJD_39 | 11556 | 11359 | CspA | 8.63e-33 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| CJHAPIJD_63 | 67106 | 67300 | CspD | 9.54e-29 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| CJHAPIJD_65 | 31860 | 31666 | CspB | 1.35e-27 | 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 |
|---|---|---|---|
| CJHAPIJD_1 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_2 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_3 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_4 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_5 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_6 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_12 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_16 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_17 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_18 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_19 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_20 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_21 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_22 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_23 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_24 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_25 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_26 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_27 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_28 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_29 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_30 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_31 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_32 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_33 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_34 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_35 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_36 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_37 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_38 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_39 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_40 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_41 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_42 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_43 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_44 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_45 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_46 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_47 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_48 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_49 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_50 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_51 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_52 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_53 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_54 | 1.0 | 0.0 | 1.0 |
| CJHAPIJD_55 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_56 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_57 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_58 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_59 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_60 | 1.0 | 0.0 | 1.0 |
| CJHAPIJD_61 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_62 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_63 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_64 | 0.0 | 1.0 | 0.0 |
| CJHAPIJD_65 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| CJHAPIJD_3 | 56163 | 82645 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG4612, VOG4705 |
| CJHAPIJD_38 | 3316 | 17571 | False | Myoviridae | VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4691, VOG4862 |
Phigaro v2.4.0 (Database: Jan. 2024 release)