Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 22 | 35 | 41.39 |
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. |
|---|---|---|---|---|---|---|---|
| JANEPKDF_20 | 180510 | 181727 | mef(A) | Erythromycin, Azithromycin | 100.00 | 100.00 | U83667 |
| JANEPKDF_20 | 178927 | 180390 | msr(D) | Erythromycin, Azithromycin, Telithromycin, Quinupristin, Pristinamycin IA, Virginiamycin S | 99.93 | 100.00 | AF274302 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| JANEPKDF_20 | 180513 | 181727 | mef(A) | macrolide efflux MFS transporter Mef(A) | EXACTX | 100.00 | 100.00 | WP_000417519.1 |
| JANEPKDF_20 | 178930 | 180390 | msr(D) | ABC-F type ribosomal protection protein Msr(D) | EXACTX | 100.00 | 100.00 | WP_000420313.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| JANEPKDF_1 | 46561 | 48021 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 97.06 | 100.00 | WP_011681177 |
| JANEPKDF_1 | 46561 | 48021 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 96.72 | 100.21 | WP_011226049 |
| JANEPKDF_1 | 46561 | 48021 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 96.17 | 100.21 | WP_041827043 |
| JANEPKDF_1 | 50261 | 51626 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 95.09 | 99.85 | WP_011681173 |
| JANEPKDF_12 | 163385 | 164236 | rfbD | 0.0 | Capsule | Immune modulation | 94.95 | 100.00 | WP_014621820 |
| JANEPKDF_1 | 49464 | 50204 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 94.60 | 100.00 | WP_011681174 |
| JANEPKDF_1 | 50261 | 51628 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 94.59 | 100.00 | WP_011226045 |
| JANEPKDF_1 | 49464 | 50204 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 94.20 | 100.00 | WP_011226046 |
| JANEPKDF_12 | 161013 | 162284 | STU_RS16265 | 0.0 | Capsule | Immune modulation | 93.63 | 99.76 | WP_011226331 |
| JANEPKDF_1 | 49464 | 50199 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 93.61 | 98.13 | WP_011227246 |
| JANEPKDF_12 | 155438 | 156247 | STU_RS16245 | 0.0 | Capsule | Immune modulation | 93.22 | 99.88 | WP_002948020 |
| JANEPKDF_12 | 156231 | 157187 | STU_RS16250 | 0.0 | Capsule | Immune modulation | 92.58 | 100.00 | WP_011226328 |
| JANEPKDF_12 | 151396 | 153180 | STU_RS16230 | 0.0 | Capsule | Immune modulation | 92.55 | 100.00 | WP_011226325 |
| JANEPKDF_12 | 157184 | 158332 | STU_RS16255 | 0.0 | Capsule | Immune modulation | 92.43 | 100.00 | WP_041828290 |
| JANEPKDF_1 | 48022 | 48753 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 92.08 | 100.00 | WP_011226048 |
| JANEPKDF_12 | 154233 | 155438 | STU_RS16240 | 0.0 | Capsule | Immune modulation | 92.04 | 100.00 | WP_011226326 |
| JANEPKDF_1 | 48022 | 48753 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 91.67 | 100.00 | WP_011681176 |
| JANEPKDF_12 | 153177 | 154211 | STU_RS16235 | 0.0 | Capsule | Immune modulation | 91.48 | 99.15 | WP_002948022 |
| JANEPKDF_20 | 33404 | 34273 | rfbA | 0.0 | Capsule | Immune modulation | 91.26 | 100.00 | WP_011681286 |
| JANEPKDF_1 | 159669 | 161326 | fbp54 | 0.0 | FBPs | Adherence | 91.14 | 99.88 | WP_011227179 |
| JANEPKDF_1 | 48022 | 48753 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 91.12 | 100.00 | WP_011227248 |
| JANEPKDF_20 | 32811 | 33404 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 90.91 | 100.00 | WP_011226149 |
| JANEPKDF_20 | 32811 | 33404 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 90.74 | 100.00 | WP_011226149 |
| JANEPKDF_20 | 32811 | 33404 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 90.74 | 100.00 | WP_011226149 |
| JANEPKDF_1 | 48762 | 49454 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 88.92 | 99.71 | WP_011227247 |
| JANEPKDF_1 | 48762 | 49454 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 88.92 | 99.71 | WP_011226047 |
| JANEPKDF_21 | 105136 | 106041 | cbpD | 0.0 | Autolysin | Exoenzyme | 88.85 | 93.50 | WP_082302295 |
| JANEPKDF_20 | 205703 | 207006 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.24 | 99.54 | WP_000022832 |
| JANEPKDF_9 | 14231 | 15241 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 87.36 | 99.80 | WP_002986042 |
| JANEPKDF_1 | 48762 | 49454 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 87.05 | 99.71 | WP_011681175 |
| JANEPKDF_1 | 315025 | 315786 | srtA | 0.0 | Sortase A | Exoenzyme | 85.19 | 99.87 | - |
| JANEPKDF_20 | 31500 | 32546 | rfbB | 0.0 | Capsule | Immune modulation | 80.90 | 100.00 | WP_009659423 |
| JANEPKDF_25 | 89430 | 90713 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.84 | 99.61 | WP_000107753 |
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 |
|---|---|---|---|---|---|---|---|---|
| JANEPKDF_1 | 175001 | 173235 | spxB | 0.0 | pyruvate oxidase gene | 97.62 | 99.66 | AAB40976 |
| JANEPKDF_1 | 306895 | 305822 | MntE | 0.0 | manganese homeostasis | 95.81 | 99.72 | ABF32167 |
| JANEPKDF_1 | 318475 | 319449 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 95.69 | 99.09 | AAK75326 |
| JANEPKDF_23 | 114734 | 112428 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 94.41 | 99.22 | AAK74619 |
| JANEPKDF_3 | 6137 | 7618 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 92.92 | 100.00 | ABJ54480 |
| JANEPKDF_21 | 12597 | 11629 | spr0084 | 0.0 | pathogenitcity related | 92.57 | 98.48 | AAK98888 |
| JANEPKDF_1 | 278838 | 276592 | metE | 0.0 | methionine biosynthesis enzymes | 92.39 | 100.00 | AAK74738 |
| JANEPKDF_5 | 3472 | 4443 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 91.36 | 100.00 | ABF36968 |
| JANEPKDF_2 | 10021 | 3473 | PrtA | 0.0 | serine protease | 90.30 | 101.73 | ABJ55268 |
| JANEPKDF_20 | 59656 | 57926 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 89.95 | 100.00 | AAK34199 |
| JANEPKDF_12 | 178102 | 176114 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.59 | 100.00 | AE014259_2 |
| JANEPKDF_12 | 206709 | 205558 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.58 | 99.74 | AAL00050 |
| JANEPKDF_22 | 178 | 1656 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.63 | 100.00 | ADE32434 |
| JANEPKDF_20 | 207006 | 205705 | Eno | 0.0 | enolase | 86.44 | 99.77 | ABP90468 |
| JANEPKDF_22 | 15526 | 17418 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.42 | 98.90 | ABP91129 |
| JANEPKDF_1 | 273673 | 275382 | PGM | 0.0 | phosphoglucomutase | 84.94 | 99.65 | ACH87041 |
| JANEPKDF_5 | 38616 | 39707 | recA | 0.0 | DNA recombination and repair | 84.64 | 95.36 | AAL00560 |
| JANEPKDF_22 | 151591 | 150581 | pdh | 0.0 | pyruvate dehydrogenase | 83.09 | 99.70 | ABP91006 |
| JANEPKDF_1 | 143810 | 145171 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.24 | 99.56 | ABP90420 |
| JANEPKDF_20 | 221412 | 220522 | bglB | 1.64e-177 | putative phospho--glucosidase | 87.54 | 99.66 | AAK33487 |
| JANEPKDF_1 | 234410 | 235360 | SP_0676 | 6.67e-170 | transcription facot | 81.39 | 98.45 | AAK74821 |
| JANEPKDF_1 | 276405 | 275548 | metF | 1.63e-169 | methionine biosynthesis enzymes | 88.11 | 99.31 | AAK74739 |
| JANEPKDF_2 | 35534 | 34863 | rr01 | 1.40e-127 | response regulator | 84.82 | 99.56 | CAB54566 |
| JANEPKDF_1 | 1777 | 2481 | covR | 1.61e-126 | responder protein | 85.53 | 100.00 | AAK71319 |
| JANEPKDF_1 | 269707 | 269039 | CiaR | 3.45e-125 | two-component response regulator | 87.44 | 99.55 | AAK74935 |
| JANEPKDF_1 | 269707 | 269036 | ciaR | 2.25e-124 | two component system response regulator | 85.71 | 99.12 | AIK75708 |
| JANEPKDF_24 | 46563 | 47249 | CovR | 2.22e-120 | serves to repress GAS virulence factor-encoding genes | 81.66 | 100.00 | ACE75886 |
| JANEPKDF_1 | 1777 | 2481 | walR | 3.67e-120 | DNA-binding response regulator | 82.13 | 100.00 | ANC99504 |
| JANEPKDF_5 | 39880 | 40275 | SpxA2 | 3.97e-76 | transcriptional regulator | 91.67 | 100.00 | ERL21461 |
| JANEPKDF_1 | 132313 | 131912 | SpxA1 | 7.42e-70 | transcriptional regulator | 82.84 | 100.00 | ERL19273 |
| JANEPKDF_26 | 6313 | 5900 | GrpE | 6.78e-68 | protein grpE | 81.88 | 80.59 | ABP89267 |
| JANEPKDF_24 | 69771 | 70058 | spr0479 | 2.16e-48 | essential gene | 85.42 | 98.97 | AAK99283 |
| JANEPKDF_21 | 53392 | 53138 | spr1327 | 8.90e-45 | essential gene | 92.94 | 100.00 | AAL00131 |
| JANEPKDF_22 | 59233 | 58970 | spr0175 | 7.91e-43 | pathogenitcity related | 85.23 | 100.00 | AAK98979 |
| JANEPKDF_22 | 58409 | 58143 | spr0177 | 1.76e-41 | essential gene | 83.15 | 88.12 | AAK98981 |
| JANEPKDF_25 | 89263 | 88772 | RopE (M5005_Spy_1611) | 4.46e-73 | probable DNA-directed RNA polymerase subunit delta | 82.93 | 85.86 | AAK34603 |
| JANEPKDF_23 | 114734 | 112434 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 83.09 | 98.08 | MYN69560 |
| JANEPKDF_22 | 114905 | 115924 | ilvC (SPD_0406) | 0.0 | ketol-acid reductoisomerase (NADP(+)) | 97.35 | 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 |
|---|---|---|---|
| JANEPKDF_1 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_2 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_3 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_4 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_5 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_6 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_7 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_8 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_9 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_10 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_11 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_12 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_14 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_15 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_16 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_17 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_18 | 1.0 | 0.0 | 1.0 |
| JANEPKDF_20 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_21 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_22 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_23 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_24 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_25 | 0.0 | 1.0 | 0.0 |
| JANEPKDF_26 | 0.0 | 1.0 | 0.0 |
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)