Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 8 | 17.55 |
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. |
|---|---|---|---|---|---|---|---|---|
| FMFMHKIL_7 | 445584 | 446438 | aadK | ARO:3002627 | aadK | 97.54 | 100.00 | AL009126.1 |
| FMFMHKIL_8 | 310333 | 310671 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| FMFMHKIL_8 | 310016 | 310333 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| FMFMHKIL_12 | 231862 | 233031 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| FMFMHKIL_6 | 111069 | 112508 | lmrB | ARO:3002813 | lmrB | 99.16 | 100.42 | JYFL01000006.1 |
| FMFMHKIL_6 | 98253 | 99173 | mphK | ARO:3004541 | mphK | 97.71 | 100.00 | CP010314.1 |
| FMFMHKIL_17 | 28997 | 30640 | vmlR | ARO:3004476 | vmlR | 98.35 | 100.00 | NC_000964.3 |
| FMFMHKIL_18 | 27209 | 29779 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| FMFMHKIL_12 | 5192 | 6394 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
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. |
|---|---|---|---|---|---|---|---|
| FMFMHKIL_2 | 1020867 | 1022243 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 100.00 | 100.00 | X08034 |
| FMFMHKIL_7 | 445584 | 446436 | aadK | Streptomycin | 98.48 | 99.77 | M26879 |
| FMFMHKIL_6 | 98253 | 99173 | mph(K) | Spiramycin, Telithromycin | 97.50 | 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. |
|---|---|---|---|---|---|---|---|---|
| FMFMHKIL_2 | 1020870 | 1022243 | tet(L) | tetracycline efflux MFS transporter Tet(L) | EXACTX | 100.00 | 100.00 | WP_003242953.1 |
| FMFMHKIL_17 | 28997 | 30637 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.35 | 100.00 | WP_003234144.1 |
| FMFMHKIL_6 | 98253 | 99170 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.71 | 100.00 | WP_003246254.1 |
| FMFMHKIL_7 | 445584 | 446435 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.54 | 100.00 | WP_003229862.1 |
| FMFMHKIL_2 | 1018350 | 1018868 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 89.60 | 100.00 | WP_003242546.1 |
| FMFMHKIL_29 | 10605 | 13202 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| FMFMHKIL_9 | 96065 | 96706 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 100.00 | 100.00 | NP_390062 |
| FMFMHKIL_2 | 527519 | 528700 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| FMFMHKIL_26 | 37621 | 39384 | dep/capD | 0.0 | Capsule | Immune modulation | 99.49 | 100.00 | NP_389723 |
| FMFMHKIL_2 | 113000 | 113785 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| FMFMHKIL_2 | 109164 | 110102 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391077 |
| FMFMHKIL_2 | 111778 | 112974 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.17 | 100.00 | NP_391079 |
| FMFMHKIL_2 | 102010 | 109144 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.06 | 99.97 | NP_391076 |
| FMFMHKIL_2 | 525894 | 527036 | capA | 0.0 | Capsule | Immune modulation | 98.95 | 100.00 | NP_391469 |
| FMFMHKIL_2 | 527055 | 527504 | capC | 0.0 | Capsule | Immune modulation | 98.67 | 100.00 | NP_391470 |
| FMFMHKIL_2 | 110130 | 111749 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.52 | 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 |
|---|---|---|---|---|---|---|---|---|
| FMFMHKIL_25 | 31825 | 32961 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| FMFMHKIL_37 | 11190 | 10321 | pdxS | 1.11e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| FMFMHKIL_2 | 366165 | 366734 | ClpP | 6.35e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| FMFMHKIL_5 | 40015 | 40407 | spxA1 | 9.57e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| FMFMHKIL_5 | 40015 | 40407 | spx | 5.71e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| FMFMHKIL_33 | 34597 | 34355 | SpoVG | 7.48e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| FMFMHKIL_17 | 81452 | 81255 | CspA | 9.80e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| FMFMHKIL_9 | 84103 | 83909 | CspD | 8.14e-29 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| FMFMHKIL_10 | 33221 | 33027 | CspB | 2.17e-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. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| FMFMHKIL_1 | 1.0 | 0.0 | 1.0 |
| FMFMHKIL_2 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_3 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_4 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_5 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_6 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_7 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_8 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_9 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_10 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_11 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_12 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_13 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_16 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_17 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_18 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_19 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_20 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_23 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_24 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_25 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_26 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_27 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_28 | 1.0 | 0.0 | 1.0 |
| FMFMHKIL_29 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_30 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_31 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_32 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_33 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_34 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_35 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_36 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_37 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_45 | 0.0 | 1.0 | 0.0 |
| FMFMHKIL_46 | 1.0 | 0.0 | 1.0 |
| FMFMHKIL_49 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| FMFMHKIL_1 | 19992 | 28340 | False | Siphoviridae | VOG0918, VOG4551, VOG0025, VOG7476, VOG0322, VOG6211 |
| FMFMHKIL_5 | 134819 | 144741 | False | Siphoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685 |
| FMFMHKIL_8 | 341364 | 347911 | False | Myoviridae | VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894 |
| FMFMHKIL_11 | 5598 | 24084 | False | Unknown | VOG4705, VOG8610, VOG0275, VOG9667, VOG9312, VOG4910, VOG3389, VOG5042, VOG9712, VOG7900 |
| FMFMHKIL_12 | 25013 | 54862 | False | Myoviridae | VOG4600, VOG1309, VOG11060, VOG0189, VOG4693, VOG4673, VOG0796, VOG9315, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718 |
Phigaro v2.4.0 (Database: Jan. 2024 release)