Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 14 | 10 | 9 | 19.42 |
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. |
|---|---|---|---|---|---|---|---|---|
| FNJCOKLM_2 | 348014 | 349183 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| FNJCOKLM_1 | 111151 | 111468 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| FNJCOKLM_1 | 110813 | 111151 | ykkC | ARO:3003063 | ykkC | 99.11 | 100.00 | AL009126.1 |
| FNJCOKLM_8 | 109482 | 110402 | mphK | ARO:3004541 | mphK | 97.71 | 100.00 | CP010314.1 |
| FNJCOKLM_8 | 96185 | 97618 | lmrB | ARO:3002813 | lmrB | 99.79 | 100.00 | JYFL01000006.1 |
| FNJCOKLM_8 | 46571 | 47164 | tmrB | ARO:3003059 | tmrB | 97.46 | 100.00 | AL009126.3 |
| FNJCOKLM_11 | 30446 | 32074 | vmlR | ARO:3004476 | vmlR | 95.39 | 99.09 | NC_000964.3 |
| FNJCOKLM_7 | 27416 | 29986 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| FNJCOKLM_3 | 21824 | 22678 | aadK | ARO:3002627 | aadK | 98.24 | 100.00 | AL009126.1 |
| FNJCOKLM_3 | 3712 | 4914 | blt | ARO:3003006 | blt | 98.00 | 100.00 | L32599.1 |
| FNJCOKLM_18 | 3683 | 4543 | TEM-116 | ARO:3000979 | TEM-116 | 100.00 | 100.00 | U36911.1 |
| FNJCOKLM_18 | 1964 | 2614 | Streptococcus suis chloramphenicol acetyltransferase | ARO:3004455 | Ssui_ACT_CHL | 94.91 | 100.00 | AB080798.1 |
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. |
|---|---|---|---|---|---|---|---|
| FNJCOKLM_18 | 3683 | 4543 | blaTEM-116 | Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin | 100.00 | 100.00 | AY425988 |
| FNJCOKLM_18 | 1964 | 2614 | cat(pC194) | Chloramphenicol | 100.00 | 100.00 | NC_002013 |
| FNJCOKLM_3 | 21824 | 22678 | aadK | Streptomycin | 98.48 | 100.00 | M26879 |
| FNJCOKLM_8 | 109482 | 110402 | mph(K) | Spiramycin, Telithromycin | 97.07 | 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. |
|---|---|---|---|---|---|---|---|---|
| FNJCOKLM_18 | 3686 | 4543 | blaTEM-116 | broad-spectrum class A beta-lactamase TEM-116 | ALLELEX | 100.00 | 100.00 | WP_000027050.1 |
| FNJCOKLM_18 | 1964 | 2611 | catA | type A-9 chloramphenicol O-acetyltransferase | EXACTX | 100.00 | 100.00 | WP_001010387.1 |
| FNJCOKLM_3 | 21827 | 22678 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| FNJCOKLM_8 | 109485 | 110402 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.71 | 100.00 | WP_003246254.1 |
| FNJCOKLM_11 | 30446 | 32068 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 95.56 | 98.90 | WP_003234144.1 |
| FNJCOKLM_5 | 41269 | 41787 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 91.33 | 100.00 | WP_003242546.1 |
| FNJCOKLM_2 | 55055 | 57652 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| FNJCOKLM_4 | 174670 | 175851 | capB | 0.0 | Capsule | Immune modulation | 99.49 | 100.00 | NP_391471 |
| FNJCOKLM_4 | 175866 | 176315 | capC | 0.0 | Capsule | Immune modulation | 99.33 | 100.00 | NP_391470 |
| FNJCOKLM_4 | 176334 | 177476 | capA | 0.0 | Capsule | Immune modulation | 99.21 | 100.00 | NP_391469 |
| FNJCOKLM_4 | 607400 | 608338 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.94 | 100.00 | NP_391077 |
| FNJCOKLM_4 | 603717 | 604502 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.86 | 100.00 | NP_391080 |
| FNJCOKLM_2 | 148456 | 149097 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 98.60 | 100.00 | NP_390062 |
| FNJCOKLM_4 | 608358 | 615494 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.46 | 100.00 | NP_391076 |
| FNJCOKLM_4 | 604528 | 605724 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.41 | 100.00 | NP_391079 |
| FNJCOKLM_2 | 9389 | 11152 | dep/capD | 0.0 | Capsule | Immune modulation | 98.07 | 100.00 | NP_389723 |
| FNJCOKLM_4 | 605753 | 607372 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.78 | 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 |
|---|---|---|---|---|---|---|---|---|
| FNJCOKLM_12 | 31737 | 32873 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| FNJCOKLM_15 | 4330 | 5199 | pdxS | 1.11e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| FNJCOKLM_1 | 421820 | 422596 | CodY | 4.97e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| FNJCOKLM_4 | 336011 | 335442 | ClpP | 4.31e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| FNJCOKLM_6 | 275495 | 275887 | spxA1 | 1.99e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| FNJCOKLM_6 | 275495 | 275887 | spx | 1.19e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| FNJCOKLM_13 | 34657 | 34415 | SpoVG | 7.50e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| FNJCOKLM_11 | 90211 | 90014 | CspA | 4.04e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| FNJCOKLM_2 | 161058 | 161252 | CspD | 3.19e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| FNJCOKLM_6 | 31229 | 31035 | CspB | 2.87e-27 | cold shock protein | 83.08 | 98.48 | CAD00094 |
BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)
Plasmid
PlasmidFinder
| Query ID | Begin | End | Plasmid | Query / Template | Identity | Accession no. |
|---|---|---|---|---|---|---|
| FNJCOKLM_18 | 3138 | 3268 | 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 |
|---|---|---|---|
| FNJCOKLM_1 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_2 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_3 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_4 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_5 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_6 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_7 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_8 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_9 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_10 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_11 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_12 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_13 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_14 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_15 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_16 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_17 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_18 | 1.0 | 0.0 | 1.0 |
| FNJCOKLM_19 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_20 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_21 | 0.0 | 1.0 | 0.0 |
| FNJCOKLM_22 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| FNJCOKLM_1 | 56292 | 80978 | False | Myoviridae | VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
| FNJCOKLM_14 | 5996 | 9089 | False | Unknown | VOG1309, VOG0189 |
| FNJCOKLM_14 | 9516 | 38663 | False | Myoviridae | VOG4058, VOG0198, VOG4585, VOG0796, VOG10227, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG10989, VOG4691, VOG4862 |
Phigaro v2.4.0 (Database: Jan. 2024 release)