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. |
|---|---|---|---|---|---|---|---|---|
| HNMJCOBO_1 | 3903004 | 3903924 | mphK | ARO:3004541 | mphK | 100.00 | 100.00 | CP010314.1 |
| HNMJCOBO_1 | 3889678 | 3891111 | lmrB | ARO:3002813 | lmrB | 100.00 | 100.00 | JYFL01000006.1 |
| HNMJCOBO_1 | 3839996 | 3840589 | tmrB | ARO:3003059 | tmrB | 100.00 | 100.00 | AL009126.3 |
| HNMJCOBO_1 | 3593099 | 3594745 | vmlR | ARO:3004476 | vmlR | 98.91 | 100.18 | NC_000964.3 |
| HNMJCOBO_1 | 3293874 | 3296444 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 100.00 | 100.00 | AL009126.3 |
| HNMJCOBO_1 | 2839544 | 2839882 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| HNMJCOBO_1 | 2839227 | 2839544 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| HNMJCOBO_1 | 1719529 | 1720698 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| HNMJCOBO_1 | 1516560 | 1517762 | blt | ARO:3003006 | blt | 100.00 | 100.00 | L32599.1 |
| HNMJCOBO_1 | 1498203 | 1499057 | aadK | ARO:3002627 | aadK | 100.00 | 100.00 | AL009126.1 |
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. |
|---|---|---|---|---|---|---|---|
| HNMJCOBO_1 | 1498203 | 1499057 | aadK | Streptomycin | 100.00 | 100.00 | M26879 |
| HNMJCOBO_1 | 3903004 | 3903924 | mph(K) | Spiramycin, Telithromycin | 100.00 | 100.00 | NC_000964 |
| HNMJCOBO_1 | 34561 | 35937 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 98.40 | 100.00 | D12567 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| HNMJCOBO_1 | 1498203 | 1499054 | aadK | aminoglycoside 6-adenylyltransferase AadK | EXACTX | 100.00 | 100.00 | WP_003229862.1 |
| HNMJCOBO_1 | 3903007 | 3903924 | mphK | macrolide 2'-phosphotransferase MphK | EXACTX | 100.00 | 100.00 | WP_003246254.1 |
| HNMJCOBO_1 | 37943 | 38461 | satA | streptothricin N-acetyltransferase SatA | EXACTX | 100.00 | 100.00 | WP_003242546.1 |
| HNMJCOBO_1 | 3593099 | 3594742 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.91 | 100.00 | WP_003234144.1 |
| HNMJCOBO_1 | 34561 | 35934 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.25 | 100.00 | WP_063856081.1 |
| HNMJCOBO_1 | 2160907 | 2163501 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.03 | 99.88 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| HNMJCOBO_1 | 527990 | 528439 | capC | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_391470 |
| HNMJCOBO_1 | 2208420 | 2210183 | dep/capD | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_389723 |
| HNMJCOBO_1 | 947499 | 948284 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 100.00 | 100.00 | NP_391080 |
| HNMJCOBO_1 | 952140 | 959276 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.99 | 100.00 | NP_391076 |
| HNMJCOBO_1 | 951182 | 952120 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.89 | 100.00 | NP_391077 |
| HNMJCOBO_1 | 1920180 | 1920821 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.84 | 100.00 | NP_390062 |
| HNMJCOBO_1 | 526794 | 527975 | capB | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | NP_391471 |
| HNMJCOBO_1 | 948310 | 949506 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.67 | 100.00 | NP_391079 |
| HNMJCOBO_1 | 949535 | 951154 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.57 | 100.00 | NP_391078 |
| HNMJCOBO_1 | 528458 | 529600 | capA | 0.0 | Capsule | Immune modulation | 99.12 | 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 |
|---|---|---|---|---|---|---|---|---|
| HNMJCOBO_1 | 4031809 | 4030673 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| HNMJCOBO_1 | 4130697 | 4129828 | pdxS | 3.07e-149 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| HNMJCOBO_1 | 2526280 | 2525504 | CodY | 3.36e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| HNMJCOBO_1 | 681205 | 680636 | ClpP | 2.49e-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 |
|---|---|---|---|
| HNMJCOBO_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 |
|---|---|---|---|---|---|
| HNMJCOBO_1 | 1975202 | 1976985 | False | Unknown | VOG9713, VOG9219 |
| HNMJCOBO_1 | 2869133 | 2895014 | False | Myoviridae | VOG0136, VOG0753, VOG4705, VOG3390, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
Phigaro v2.4.0 (Database: Jan. 2024 release)