Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 4 | 16.12 |
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. |
|---|---|---|---|---|---|---|---|---|
| NCGIDCDD_1 | 3633299 | 3634153 | aadK | ARO:3002627 | aadK | 97.89 | 100.00 | AL009126.1 |
| NCGIDCDD_1 | 3616217 | 3617419 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
| NCGIDCDD_1 | 3437496 | 3438665 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| NCGIDCDD_1 | 2470858 | 2471175 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| NCGIDCDD_1 | 2470520 | 2470858 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| NCGIDCDD_1 | 1969826 | 1972396 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| NCGIDCDD_1 | 1682905 | 1684551 | vmlR | ARO:3004476 | vmlR | 98.91 | 100.18 | NC_000964.3 |
| NCGIDCDD_1 | 1434032 | 1434625 | tmrB | ARO:3003059 | tmrB | 97.97 | 100.00 | AL009126.3 |
| NCGIDCDD_1 | 1383532 | 1384965 | lmrB | ARO:3002813 | lmrB | 100.00 | 100.00 | JYFL01000006.1 |
| NCGIDCDD_1 | 1370719 | 1371639 | 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. |
|---|---|---|---|---|---|---|---|
| NCGIDCDD_1 | 1370719 | 1371639 | mph(K) | Spiramycin, Telithromycin | 99.24 | 100.00 | NC_000964 |
| NCGIDCDD_1 | 3633301 | 3634153 | aadK | Streptomycin | 98.59 | 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. |
|---|---|---|---|---|---|---|---|---|
| NCGIDCDD_1 | 1682908 | 1684551 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.91 | 100.00 | WP_003234144.1 |
| NCGIDCDD_1 | 1370719 | 1371636 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.69 | 100.00 | WP_003246254.1 |
| NCGIDCDD_1 | 3633302 | 3634153 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.89 | 100.00 | WP_003229862.1 |
| NCGIDCDD_1 | 128273 | 128791 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 92.49 | 100.00 | WP_003242546.1 |
| NCGIDCDD_1 | 3147193 | 3149790 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.14 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| NCGIDCDD_1 | 3240344 | 3240985 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.69 | 100.00 | NP_390062 |
| NCGIDCDD_1 | 614546 | 615727 | capB | 0.0 | Capsule | Immune modulation | 99.58 | 100.00 | NP_391471 |
| NCGIDCDD_1 | 1084517 | 1085302 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.49 | 100.00 | NP_391080 |
| NCGIDCDD_1 | 1088200 | 1089138 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.25 | 100.00 | NP_391077 |
| NCGIDCDD_1 | 3097712 | 3099475 | dep/capD | 0.0 | Capsule | Immune modulation | 99.21 | 100.00 | NP_389723 |
| NCGIDCDD_1 | 615742 | 616191 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| NCGIDCDD_1 | 616210 | 617352 | capA | 0.0 | Capsule | Immune modulation | 98.95 | 100.00 | NP_391469 |
| NCGIDCDD_1 | 1085328 | 1086524 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.75 | 100.00 | NP_391079 |
| NCGIDCDD_1 | 1089158 | 1096294 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.71 | 100.00 | NP_391076 |
| NCGIDCDD_1 | 1086553 | 1088172 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.22 | 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 |
|---|---|---|---|---|---|---|---|---|
| NCGIDCDD_1 | 1240534 | 1241670 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| NCGIDCDD_1 | 79150 | 78281 | pdxS | 3.02e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| NCGIDCDD_1 | 2779697 | 2780473 | CodY | 3.30e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| NCGIDCDD_1 | 768141 | 767572 | ClpP | 2.44e-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 |
|---|---|---|---|
| NCGIDCDD_1 | 0.0 | 1.0 | 0.0 |
| NCGIDCDD_2 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| NCGIDCDD_1 | 779172 | 801458 | False | Siphoviridae | VOG8909, VOG4581, VOG4544, VOG4556, VOG4568, VOG4553, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG6163, VOG0801, VOG4619, VOG4626, VOG4612, VOG3390, VOG4705, VOG0753, VOG4666, VOG0602 |
| NCGIDCDD_1 | 2333090 | 2353477 | False | Siphoviridae | VOG0796, VOG0720, VOG4564, VOG4555, VOG4553, VOG1125, VOG0815, VOG4623, VOG0816, VOG5660, VOG0724, VOG0799, VOG0725, VOG4545, VOG4605, VOG4599, VOG5535 |
| NCGIDCDD_1 | 2415864 | 2441281 | 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, VOG7895, VOG0753 |
Phigaro v2.4.0 (Database: Jan. 2024 release)