Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 14 | 10 | 4 | 17.66 |
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. |
|---|---|---|---|---|---|---|---|---|
| AGMGJIBN_1 | 3590755 | 3591072 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| AGMGJIBN_1 | 3590417 | 3590755 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| AGMGJIBN_1 | 3127676 | 3130246 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| AGMGJIBN_1 | 2794721 | 2796364 | vmlR | ARO:3004476 | vmlR | 98.54 | 100.00 | NC_000964.3 |
| AGMGJIBN_1 | 2553626 | 2554219 | tmrB | ARO:3003059 | tmrB | 100.00 | 100.00 | AL009126.3 |
| AGMGJIBN_1 | 2503150 | 2504583 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.00 | JYFL01000006.1 |
| AGMGJIBN_1 | 2490337 | 2491257 | mphK | ARO:3004541 | mphK | 99.02 | 100.00 | CP010314.1 |
| AGMGJIBN_1 | 2248651 | 2249511 | TEM-116 | ARO:3000979 | TEM-116 | 100.00 | 100.00 | U36911.1 |
| AGMGJIBN_1 | 719499 | 720353 | aadK | ARO:3002627 | aadK | 98.24 | 100.00 | AL009126.1 |
| AGMGJIBN_1 | 700838 | 702040 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
| AGMGJIBN_1 | 473803 | 474972 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
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. |
|---|---|---|---|---|---|---|---|
| AGMGJIBN_1 | 2248651 | 2249511 | blaTEM-116 | Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin | 100.00 | 100.00 | AY425988 |
| AGMGJIBN_1 | 2490337 | 2491257 | mph(K) | Spiramycin, Telithromycin | 99.35 | 100.00 | NC_000964 |
| AGMGJIBN_1 | 2184109 | 2185485 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 98.84 | 100.00 | X08034 |
| AGMGJIBN_1 | 719501 | 720353 | aadK | Streptomycin | 98.71 | 99.77 | M26879 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| AGMGJIBN_1 | 2248654 | 2249511 | blaTEM-116 | broad-spectrum class A beta-lactamase TEM-116 | ALLELEX | 100.00 | 100.00 | WP_000027050.1 |
| AGMGJIBN_1 | 2490337 | 2491254 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.02 | 100.00 | WP_003246254.1 |
| AGMGJIBN_1 | 2184112 | 2185485 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.69 | 100.00 | WP_003242953.1 |
| AGMGJIBN_1 | 2794724 | 2796364 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| AGMGJIBN_1 | 719502 | 720353 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| AGMGJIBN_1 | 2181638 | 2182156 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.17 | 100.00 | WP_003242546.1 |
| AGMGJIBN_1 | 176038 | 178635 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| AGMGJIBN_1 | 272356 | 272997 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.69 | 100.00 | NP_390062 |
| AGMGJIBN_1 | 1295272 | 1296210 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.68 | 100.00 | NP_391077 |
| AGMGJIBN_1 | 1700650 | 1701831 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| AGMGJIBN_1 | 1296238 | 1297857 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.26 | 100.00 | NP_391078 |
| AGMGJIBN_1 | 1299108 | 1299893 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.24 | 100.00 | NP_391080 |
| AGMGJIBN_1 | 1699025 | 1700167 | capA | 0.0 | Capsule | Immune modulation | 98.95 | 100.00 | NP_391469 |
| AGMGJIBN_1 | 1297886 | 1299082 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.91 | 100.00 | NP_391079 |
| AGMGJIBN_1 | 130643 | 132406 | dep/capD | 0.0 | Capsule | Immune modulation | 98.87 | 100.00 | NP_389723 |
| AGMGJIBN_1 | 1288116 | 1295252 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.82 | 100.00 | NP_391076 |
| AGMGJIBN_1 | 1700186 | 1700635 | capC | 0.0 | Capsule | Immune modulation | 98.67 | 100.00 | NP_391470 |
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 |
|---|---|---|---|---|---|---|---|---|
| AGMGJIBN_1 | 2347778 | 2348914 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| AGMGJIBN_1 | 2231090 | 2231959 | pdxS | 3.04e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| AGMGJIBN_1 | 3900608 | 3901384 | CodY | 3.32e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| AGMGJIBN_1 | 1559233 | 1559802 | ClpP | 2.46e-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. |
|---|---|---|---|---|---|---|
| AGMGJIBN_1 | 2248106 | 2248236 | ColRNAI | 131 / 130 | 87.02 | DQ298019 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| AGMGJIBN_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 |
|---|---|---|---|---|---|
| AGMGJIBN_1 | 651861 | 683990 | False | Myoviridae | VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG9315, VOG0796, VOG7060, VOG4673, VOG4567, VOG4693, VOG0189, VOG11060, VOG1309 |
| AGMGJIBN_1 | 2842194 | 2851108 | False | Siphoviridae | VOG0275, VOG4602, VOG9667, VOG11075, VOG0650, VOG4552, VOG4603, VOG8233, VOG0186, VOG4566 |
| AGMGJIBN_1 | 2857401 | 2881544 | False | Myoviridae | VOG0796, VOG0720, VOG4555, VOG4553, VOG0815, VOG4564, VOG4623, VOG1353, VOG1881, VOG1883, VOG1352, VOG4699, VOG1350, VOG6163, VOG1956, VOG1433, VOG1348, VOG0573, VOG4550, VOG4691, VOG4845, VOG7718, VOG3390, VOG4705, VOG5008, VOG0753, VOG0136, VOG4574 |
| AGMGJIBN_1 | 3533115 | 3560927 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG2752, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG4612, VOG4705 |
Phigaro v2.4.0 (Database: Jan. 2024 release)