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. |
|---|---|---|---|---|---|---|---|---|
| JFJHHPIP_1 | 2590580 | 2591434 | aadK | ARO:3002627 | aadK | 98.24 | 100.00 | AL009126.1 |
| JFJHHPIP_1 | 2571795 | 2572997 | blt | ARO:3003006 | blt | 100.00 | 100.00 | L32599.1 |
| JFJHHPIP_1 | 2374176 | 2375345 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
| JFJHHPIP_1 | 1340402 | 1340719 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| JFJHHPIP_1 | 1340064 | 1340402 | ykkC | ARO:3003063 | ykkC | 99.11 | 100.00 | AL009126.1 |
| JFJHHPIP_1 | 878928 | 881498 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| JFJHHPIP_1 | 544967 | 546613 | vmlR | ARO:3004476 | vmlR | 98.18 | 100.18 | NC_000964.3 |
| JFJHHPIP_1 | 297700 | 298293 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| JFJHHPIP_1 | 247147 | 248580 | lmrB | ARO:3002813 | lmrB | 100.00 | 100.00 | JYFL01000006.1 |
| JFJHHPIP_1 | 234331 | 235251 | mphK | ARO:3004541 | mphK | 97.71 | 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. |
|---|---|---|---|---|---|---|---|
| JFJHHPIP_1 | 4035527 | 4036903 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 99.06 | 100.00 | D12567 |
| JFJHHPIP_1 | 2590582 | 2591434 | aadK | Streptomycin | 98.36 | 99.77 | M26879 |
| JFJHHPIP_1 | 234331 | 235251 | mph(K) | Spiramycin, Telithromycin | 97.72 | 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. |
|---|---|---|---|---|---|---|---|---|
| JFJHHPIP_1 | 4035530 | 4036903 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.91 | 100.00 | WP_063856081.1 |
| JFJHHPIP_1 | 2590583 | 2591434 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| JFJHHPIP_1 | 544970 | 546613 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.18 | 100.00 | WP_003234144.1 |
| JFJHHPIP_1 | 234331 | 235248 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.71 | 100.00 | WP_003246254.1 |
| JFJHHPIP_1 | 4033064 | 4033582 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.75 | 100.00 | WP_003242546.1 |
| JFJHHPIP_1 | 2024035 | 2026632 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.71 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| JFJHHPIP_1 | 3149018 | 3149803 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.62 | 100.00 | NP_391080 |
| JFJHHPIP_1 | 3544995 | 3546176 | capB | 0.0 | Capsule | Immune modulation | 99.58 | 100.00 | NP_391471 |
| JFJHHPIP_1 | 3543370 | 3544512 | capA | 0.0 | Capsule | Immune modulation | 99.47 | 100.00 | NP_391469 |
| JFJHHPIP_1 | 2135203 | 2135844 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.38 | 100.00 | NP_390062 |
| JFJHHPIP_1 | 3138026 | 3145162 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.20 | 100.00 | NP_391076 |
| JFJHHPIP_1 | 3544531 | 3544980 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| JFJHHPIP_1 | 1977458 | 1979221 | dep/capD | 0.0 | Capsule | Immune modulation | 99.04 | 100.00 | NP_389723 |
| JFJHHPIP_1 | 3147796 | 3148992 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.91 | 100.00 | NP_391079 |
| JFJHHPIP_1 | 3145182 | 3146120 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.19 | 100.00 | NP_391077 |
| JFJHHPIP_1 | 3146148 | 3147767 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.84 | 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 |
|---|---|---|---|---|---|---|---|---|
| JFJHHPIP_1 | 109121 | 110257 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| JFJHHPIP_1 | 1065 | 1934 | pdxS | 3.03e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| JFJHHPIP_1 | 1650376 | 1651152 | CodY | 3.31e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| JFJHHPIP_1 | 3402973 | 3403542 | ClpP | 2.45e-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 |
|---|---|---|---|
| JFJHHPIP_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 |
|---|---|---|---|---|---|
| JFJHHPIP_1 | 592561 | 601097 | False | Siphoviridae | VOG0275, VOG4602, VOG9607, VOG9667, VOG4603, VOG0650, VOG4552, VOG4603, VOG8233, VOG0186 |
| JFJHHPIP_1 | 610553 | 637046 | False | Siphoviridae | VOG0796, VOG10227, VOG0720, VOG4564, VOG4555, VOG4553, VOG1125, VOG0815, VOG4623, VOG0816, VOG5660, VOG0724, VOG0799, VOG0725, VOG4545, VOG4605, VOG4599, VOG1799, VOG5535, VOG0753, VOG0136, VOG4574, VOG2703, VOG9953, VOG3477, VOG3490 |
| JFJHHPIP_1 | 1283862 | 1310600 | 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 |
Phigaro v2.4.0 (Database: Jan. 2024 release)