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. |
|---|---|---|---|---|---|---|---|---|
| GAIPCDJL_1 | 2511137 | 2511991 | aadK | ARO:3002627 | aadK | 98.24 | 100.00 | AL009126.1 |
| GAIPCDJL_1 | 2492384 | 2493586 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
| GAIPCDJL_1 | 2296503 | 2297672 | bmr | ARO:3003007 | bmr | 99.23 | 100.00 | M33768.1 |
| GAIPCDJL_1 | 1266147 | 1266464 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| GAIPCDJL_1 | 1265809 | 1266147 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| GAIPCDJL_1 | 802724 | 805294 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| GAIPCDJL_1 | 503370 | 505013 | vmlR | ARO:3004476 | vmlR | 98.90 | 100.00 | NC_000964.3 |
| GAIPCDJL_1 | 248129 | 248722 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| GAIPCDJL_1 | 197575 | 199008 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.00 | JYFL01000006.1 |
| GAIPCDJL_1 | 184761 | 185681 | mphK | ARO:3004541 | mphK | 98.69 | 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. |
|---|---|---|---|---|---|---|---|
| GAIPCDJL_1 | 3974156 | 3975532 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 99.35 | 100.00 | D12567 |
| GAIPCDJL_1 | 2511139 | 2511991 | aadK | Streptomycin | 99.18 | 99.77 | M26879 |
| GAIPCDJL_1 | 184761 | 185681 | mph(K) | Spiramycin, Telithromycin | 98.37 | 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. |
|---|---|---|---|---|---|---|---|---|
| GAIPCDJL_1 | 3974159 | 3975532 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 99.13 | 100.00 | WP_063856081.1 |
| GAIPCDJL_1 | 503373 | 505013 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.90 | 100.00 | WP_003234144.1 |
| GAIPCDJL_1 | 184761 | 185678 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.69 | 100.00 | WP_003246254.1 |
| GAIPCDJL_1 | 2511140 | 2511991 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| GAIPCDJL_1 | 3971635 | 3972153 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 92.49 | 100.00 | WP_003242546.1 |
| GAIPCDJL_1 | 1992800 | 1995397 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.40 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| GAIPCDJL_1 | 3479906 | 3481087 | capB | 0.0 | Capsule | Immune modulation | 99.92 | 100.00 | NP_391471 |
| GAIPCDJL_1 | 2097331 | 2097972 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.84 | 100.00 | NP_390062 |
| GAIPCDJL_1 | 3063326 | 3064264 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.68 | 100.00 | NP_391077 |
| GAIPCDJL_1 | 3067162 | 3067947 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.62 | 100.00 | NP_391080 |
| GAIPCDJL_1 | 3056172 | 3063306 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.44 | 99.97 | NP_391076 |
| GAIPCDJL_1 | 3479442 | 3479891 | capC | 0.0 | Capsule | Immune modulation | 99.33 | 100.00 | NP_391470 |
| GAIPCDJL_1 | 1942716 | 1944479 | dep/capD | 0.0 | Capsule | Immune modulation | 99.15 | 100.00 | NP_389723 |
| GAIPCDJL_1 | 3065940 | 3067136 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.08 | 100.00 | NP_391079 |
| GAIPCDJL_1 | 3478281 | 3479423 | capA | 0.0 | Capsule | Immune modulation | 98.78 | 100.00 | NP_391469 |
| GAIPCDJL_1 | 3064292 | 3065911 | 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 |
|---|---|---|---|---|---|---|---|---|
| GAIPCDJL_1 | 31765 | 32901 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| GAIPCDJL_1 | 4043085 | 4043954 | pdxS | 3.06e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| GAIPCDJL_1 | 1576336 | 1577112 | CodY | 3.34e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| GAIPCDJL_1 | 3318527 | 3319096 | ClpP | 2.48e-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 |
|---|---|---|---|
| GAIPCDJL_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 |
|---|---|---|---|---|---|
| GAIPCDJL_1 | 1208434 | 1236330 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG3390, VOG4705 |
| GAIPCDJL_1 | 1769175 | 1770338 | False | Unknown | VOG6495, VOG6495 |
| GAIPCDJL_1 | 1781651 | 1805918 | False | Siphoviridae | VOG4841, VOG4581, VOG1886, VOG4556, VOG4568, VOG4553, VOG5361, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG5910, VOG6163, VOG0801, VOG4619, VOG4626, VOG3390, VOG4705, VOG4612, VOG3390, VOG7896, VOG0641 |
Phigaro v2.4.0 (Database: Jan. 2024 release)