Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 4 | 16.88 |
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. |
|---|---|---|---|---|---|---|---|---|
| JCJKPCCM_1 | 2632028 | 2632882 | aadK | ARO:3002627 | aadK | 98.94 | 100.00 | AL009126.1 |
| JCJKPCCM_1 | 2613655 | 2614857 | blt | ARO:3003006 | blt | 99.50 | 100.00 | L32599.1 |
| JCJKPCCM_1 | 2394507 | 2395676 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| JCJKPCCM_1 | 1402689 | 1403006 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| JCJKPCCM_1 | 1402351 | 1402689 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| JCJKPCCM_1 | 936560 | 939130 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| JCJKPCCM_1 | 640341 | 641984 | vmlR | ARO:3004476 | vmlR | 98.35 | 100.00 | NC_000964.3 |
| JCJKPCCM_1 | 391482 | 392075 | tmrB | ARO:3003059 | tmrB | 100.00 | 100.00 | AL009126.3 |
| JCJKPCCM_1 | 340918 | 342351 | lmrB | ARO:3002813 | lmrB | 100.00 | 100.00 | JYFL01000006.1 |
| JCJKPCCM_1 | 328103 | 329023 | mphK | ARO:3004541 | mphK | 98.02 | 100.00 | CP010314.1 |
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. |
|---|---|---|---|---|---|---|---|
| JCJKPCCM_1 | 2632030 | 2632882 | aadK | Streptomycin | 98.94 | 99.77 | M26879 |
| JCJKPCCM_1 | 4130595 | 4131971 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 98.91 | 100.00 | D12567 |
| JCJKPCCM_1 | 328103 | 329023 | 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. |
|---|---|---|---|---|---|---|---|---|
| JCJKPCCM_1 | 2632031 | 2632882 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.94 | 100.00 | WP_003229862.1 |
| JCJKPCCM_1 | 4130598 | 4131971 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.91 | 100.00 | WP_063856081.1 |
| JCJKPCCM_1 | 640344 | 641984 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.35 | 100.00 | WP_003234144.1 |
| JCJKPCCM_1 | 328103 | 329011 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.02 | 99.02 | WP_003246254.1 |
| JCJKPCCM_1 | 4128124 | 4128642 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| JCJKPCCM_1 | 2086692 | 2089289 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.83 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| JCJKPCCM_1 | 3226030 | 3226968 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.89 | 100.00 | NP_391077 |
| JCJKPCCM_1 | 3218874 | 3226010 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.76 | 100.00 | NP_391076 |
| JCJKPCCM_1 | 3644720 | 3645901 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| JCJKPCCM_1 | 3226996 | 3228615 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.57 | 100.00 | NP_391078 |
| JCJKPCCM_1 | 3644256 | 3644705 | capC | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391470 |
| JCJKPCCM_1 | 3229866 | 3230651 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.49 | 100.00 | NP_391080 |
| JCJKPCCM_1 | 2037389 | 2039152 | dep/capD | 0.0 | Capsule | Immune modulation | 99.38 | 100.00 | NP_389723 |
| JCJKPCCM_1 | 3228644 | 3229840 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.25 | 100.00 | NP_391079 |
| JCJKPCCM_1 | 2194538 | 2195179 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.22 | 100.00 | NP_390062 |
| JCJKPCCM_1 | 3643095 | 3644237 | capA | 0.0 | Capsule | Immune modulation | 99.21 | 100.00 | NP_391469 |
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 |
|---|---|---|---|---|---|---|---|---|
| JCJKPCCM_1 | 132338 | 133474 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| JCJKPCCM_1 | 18602 | 19471 | pdxS | 5.41e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| JCJKPCCM_1 | 1716005 | 1716781 | CodY | 3.38e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| JCJKPCCM_1 | 3485516 | 3486085 | ClpP | 2.50e-98 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
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 |
|---|---|---|---|
| JCJKPCCM_1 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| JCJKPCCM_1 | 169081 | 176931 | False | Unknown | VOG3549, VOG1878, VOG0083, VOG1309, VOG1292, VOG11060, VOG9600 |
| JCJKPCCM_1 | 180119 | 214084 | False | Myoviridae | VOG10058, VOG0198, VOG6242, VOG4618, VOG4567, VOG1328, VOG5361, VOG9315, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG5668, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG10120, VOG4691, VOG4862, VOG7718, VOG3390, VOG4705, VOG0753 |
| JCJKPCCM_1 | 1345132 | 1372863 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
| JCJKPCCM_1 | 2567091 | 2596994 | False | Myoviridae | VOG7718, VOG4862, VOG4691, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG10227, VOG0796, VOG4673, VOG9587, VOG4693, VOG0189, VOG11060, VOG1309, VOG4600 |
| JCJKPCCM_1 | 2803015 | 2829298 | False | Myoviridae | VOG6116, VOG6613, VOG4574, VOG0136, VOG0753, VOG4705, VOG3390, VOG7718, VOG4845, VOG4691, VOG4550, VOG0573, VOG1348, VOG1433, VOG1956, VOG6163, VOG1350, VOG4699, VOG1352, VOG1883, VOG1881, VOG1353, VOG4623, VOG4564, VOG0815, VOG4553, VOG4555, VOG0720, VOG0796 |
| JCJKPCCM_1 | 2834386 | 2838510 | False | Myoviridae | VOG0189, VOG5263, VOG1309, VOG4600 |
Phigaro v2.4.0 (Database: Jan. 2024 release)