Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 25 | 33 | 41.40 |
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. |
|---|---|---|---|---|---|---|---|---|
| No hit found | ||||||||
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. |
|---|---|---|---|---|---|---|---|
| No hit found | |||||||
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| No hit found | ||||||||
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. |
|---|---|---|---|---|---|---|---|---|---|
| PMDOPBEN_8 | 19511 | 20380 | rfbA | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011681286 |
| PMDOPBEN_8 | 20380 | 20973 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011226149 |
| PMDOPBEN_5 | 86673 | 87482 | STU_RS16245 | 0.0 | Capsule | Immune modulation | 99.88 | 100.00 | WP_002948020 |
| PMDOPBEN_8 | 20380 | 20973 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | WP_011226149 |
| PMDOPBEN_5 | 85733 | 86689 | STU_RS16250 | 0.0 | Capsule | Immune modulation | 99.79 | 100.00 | WP_011226328 |
| PMDOPBEN_5 | 84588 | 85736 | STU_RS16255 | 0.0 | Capsule | Immune modulation | 99.74 | 100.00 | WP_041828290 |
| PMDOPBEN_8 | 20380 | 20973 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | WP_011226149 |
| PMDOPBEN_5 | 80241 | 81092 | rfbD | 0.0 | Capsule | Immune modulation | 99.65 | 100.00 | WP_014621820 |
| PMDOPBEN_34 | 1514 | 3172 | fbp54 | 0.0 | FBPs | Adherence | 99.58 | 100.00 | WP_011227179 |
| PMDOPBEN_5 | 87482 | 88687 | STU_RS16240 | 0.0 | Capsule | Immune modulation | 99.58 | 100.00 | WP_011226326 |
| PMDOPBEN_22 | 20964 | 21803 | cbpD | 0.0 | Autolysin | Exoenzyme | 99.52 | 100.00 | WP_011226733 |
| PMDOPBEN_5 | 83469 | 84479 | STU_RS16260 | 0.0 | Capsule | Immune modulation | 99.50 | 100.00 | WP_011226330 |
| PMDOPBEN_1 | 134856 | 135999 | cshA | 0.0 | Cell surface hydrophobicity proteins | Adherence | 99.48 | 100.00 | - |
| PMDOPBEN_5 | 89759 | 91543 | STU_RS16230 | 0.0 | Capsule | Immune modulation | 99.44 | 100.00 | WP_011226325 |
| PMDOPBEN_5 | 88707 | 89762 | STU_RS16235 | 0.0 | Capsule | Immune modulation | 99.43 | 100.00 | WP_002948022 |
| PMDOPBEN_24 | 236 | 997 | srtA | 0.0 | Sortase A | Exoenzyme | 98.82 | 100.00 | - |
| PMDOPBEN_38 | 13398 | 14813 | STER_RS05250 | 0.0 | Capsule | Immune modulation | 98.59 | 100.00 | WP_011681165 |
| PMDOPBEN_38 | 1675 | 2406 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 98.36 | 100.00 | WP_011226048 |
| PMDOPBEN_38 | 1675 | 2406 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 98.09 | 100.00 | WP_011681176 |
| PMDOPBEN_38 | 1675 | 2406 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 97.68 | 100.00 | WP_011227248 |
| PMDOPBEN_5 | 82195 | 83466 | STU_RS16265 | 0.0 | Capsule | Immune modulation | 97.48 | 99.76 | WP_011226331 |
| PMDOPBEN_38 | 214 | 1674 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 97.47 | 100.00 | WP_011681177 |
| PMDOPBEN_38 | 3117 | 3857 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 97.17 | 100.00 | WP_011226046 |
| PMDOPBEN_38 | 214 | 1674 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 97.12 | 100.21 | WP_011226049 |
| PMDOPBEN_38 | 214 | 1674 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 96.99 | 100.21 | WP_041827043 |
| PMDOPBEN_38 | 3117 | 3857 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 96.76 | 100.00 | WP_011681174 |
| PMDOPBEN_38 | 3117 | 3852 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 96.20 | 98.13 | WP_011227246 |
| PMDOPBEN_38 | 2415 | 3107 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 95.40 | 99.86 | WP_011227247 |
| PMDOPBEN_38 | 2415 | 3107 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 95.40 | 99.86 | WP_011226047 |
| PMDOPBEN_38 | 3914 | 5281 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 95.39 | 100.00 | WP_011226045 |
| PMDOPBEN_38 | 3914 | 5279 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 94.14 | 99.85 | WP_011681173 |
| PMDOPBEN_38 | 2415 | 3107 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 89.47 | 100.00 | WP_011681175 |
| PMDOPBEN_1 | 33928 | 35231 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.10 | 99.46 | WP_000022832 |
| PMDOPBEN_2 | 14970 | 15980 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 86.54 | 99.41 | WP_002986042 |
| PMDOPBEN_14 | 39346 | 40629 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.73 | 99.77 | WP_000107753 |
| PMDOPBEN_8 | 21402 | 22448 | rfbB | 0.0 | Capsule | Immune modulation | 80.61 | 100.00 | WP_009659423 |
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 |
|---|---|---|---|---|---|---|---|---|
| PMDOPBEN_24 | 3684 | 4667 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 94.82 | 100.00 | AAK75326 |
| PMDOPBEN_16 | 14335 | 13262 | MntE | 0.0 | manganese homeostasis | 94.41 | 99.72 | ABF32167 |
| PMDOPBEN_1 | 118916 | 117948 | spr0084 | 0.0 | pathogenitcity related | 93.19 | 98.48 | AAK98888 |
| PMDOPBEN_12 | 40822 | 43125 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 92.84 | 99.22 | AAK74619 |
| PMDOPBEN_7 | 60953 | 62434 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 92.31 | 100.00 | ABJ54480 |
| PMDOPBEN_25 | 16473 | 18719 | metE | 0.0 | methionine biosynthesis enzymes | 91.72 | 100.00 | AAK74738 |
| PMDOPBEN_36 | 2026 | 1028 | recA | 0.0 | DNA recombination and repair | 91.29 | 85.82 | AAL00560 |
| PMDOPBEN_22 | 4481 | 5452 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 90.12 | 100.00 | ABF36968 |
| PMDOPBEN_5 | 29112 | 30263 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.32 | 99.74 | AAL00050 |
| PMDOPBEN_5 | 65271 | 67259 | uvrB | 0.0 | excinuclease ABC, B subunit | 88.99 | 100.00 | AE014259_2 |
| PMDOPBEN_39 | 12773 | 14503 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 87.87 | 100.00 | AAK34199 |
| PMDOPBEN_4 | 67962 | 66484 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.42 | 100.00 | ADE32434 |
| PMDOPBEN_1 | 35231 | 33930 | Eno | 0.0 | enolase | 86.21 | 99.77 | ABP90468 |
| PMDOPBEN_4 | 52774 | 50882 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 86.05 | 98.90 | ABP91129 |
| PMDOPBEN_25 | 21644 | 19935 | PGM | 0.0 | phosphoglucomutase | 83.71 | 99.65 | ACH87041 |
| PMDOPBEN_30 | 2109 | 1099 | pdh | 0.0 | pyruvate dehydrogenase | 83.09 | 99.70 | ABP91006 |
| PMDOPBEN_2 | 85514 | 86875 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.24 | 99.56 | ABP90420 |
| PMDOPBEN_10 | 31118 | 29226 | PepO | 0.0 | endopeptidase | 80.19 | 100.00 | ABF32980 |
| PMDOPBEN_1 | 49666 | 48776 | bglB | 9.77e-180 | putative phospho--glucosidase | 88.89 | 99.66 | AAK33487 |
| PMDOPBEN_13 | 43973 | 44911 | SP_0676 | 6.01e-169 | transcription facot | 81.15 | 97.20 | AAK74821 |
| PMDOPBEN_25 | 18911 | 19768 | metF | 2.37e-166 | methionine biosynthesis enzymes | 86.36 | 99.31 | AAK74739 |
| PMDOPBEN_21 | 29478 | 30182 | covR | 8.25e-133 | responder protein | 85.53 | 100.00 | AAK71319 |
| PMDOPBEN_7 | 19761 | 19090 | rr01 | 1.64e-125 | response regulator | 83.93 | 99.56 | CAB54566 |
| PMDOPBEN_21 | 29478 | 30182 | walR | 3.47e-123 | DNA-binding response regulator | 82.13 | 100.00 | ANC99504 |
| PMDOPBEN_28 | 16076 | 16762 | CovR | 1.37e-119 | serves to repress GAS virulence factor-encoding genes | 80.79 | 100.00 | ACE75886 |
| PMDOPBEN_25 | 25598 | 26266 | CiaR | 3.15e-119 | two-component response regulator | 84.31 | 99.55 | AAK74935 |
| PMDOPBEN_25 | 25598 | 26269 | ciaR | 3.10e-117 | two component system response regulator | 82.14 | 99.12 | AIK75708 |
| PMDOPBEN_36 | 752 | 378 | SpxA2 | 9.50e-72 | transcriptional regulator | 91.20 | 94.70 | ERL21461 |
| PMDOPBEN_2 | 74156 | 73755 | SpxA1 | 2.22e-67 | transcriptional regulator | 80.60 | 100.00 | ERL19273 |
| PMDOPBEN_18 | 13761 | 14048 | spr0479 | 3.00e-49 | essential gene | 86.46 | 98.97 | AAK99283 |
| PMDOPBEN_6 | 18352 | 18098 | spr1327 | 1.11e-45 | essential gene | 95.29 | 100.00 | AAL00131 |
| PMDOPBEN_4 | 10185 | 10448 | spr0175 | 4.61e-42 | pathogenitcity related | 84.09 | 100.00 | AAK98979 |
| PMDOPBEN_4 | 11012 | 11278 | spr0177 | 8.14e-34 | essential gene | 84.27 | 88.12 | AAK98981 |
| PMDOPBEN_14 | 39188 | 38688 | RopE (M5005_Spy_1611) | 1.21e-76 | probable DNA-directed RNA polymerase subunit delta | 81.44 | 87.43 | AAK34603 |
| PMDOPBEN_12 | 40822 | 43119 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 82.81 | 98.08 | MYN69560 |
| PMDOPBEN_10 | 16646 | 15627 | ilvC (SPD_0406) | 0.0 | ketol-acid reductoisomerase (NADP(+)) | 96.47 | 100.00 | ABJ55451 |
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 |
|---|---|---|---|
| PMDOPBEN_1 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_2 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_3 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_4 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_5 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_6 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_7 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_8 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_9 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_10 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_11 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_12 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_13 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_14 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_15 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_16 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_17 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_18 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_19 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_20 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_21 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_22 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_23 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_24 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_25 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_26 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_27 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_28 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_29 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_30 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_31 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_32 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_33 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_34 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_35 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_36 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_37 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_38 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_39 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_40 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_41 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_42 | 1.0 | 0.0 | 1.0 |
| PMDOPBEN_43 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_45 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_46 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_47 | 1.0 | 0.0 | 1.0 |
| PMDOPBEN_48 | 1.0 | 0.0 | 1.0 |
| PMDOPBEN_49 | 1.0 | 0.0 | 1.0 |
| PMDOPBEN_50 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_51 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_52 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_53 | 0.0 | 1.0 | 0.0 |
| PMDOPBEN_54 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| No hit found | |||||
Phigaro v2.4.0 (Database: Jan. 2024 release)