Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 22 | 34 | 40.55 |
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. |
|---|---|---|---|---|---|---|---|---|
| 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. |
|---|---|---|---|---|---|---|---|
| BIIGPAPK_21 | 70496 | 71713 | mef(A) | Erythromycin, Azithromycin | 100.00 | 100.00 | U83667 |
| BIIGPAPK_21 | 68913 | 70376 | msr(D) | Erythromycin, Azithromycin, Telithromycin, Quinupristin, Pristinamycin IA, Virginiamycin S | 100.00 | 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. |
|---|---|---|---|---|---|---|---|---|
| BIIGPAPK_21 | 70499 | 71713 | mef(A) | macrolide efflux MFS transporter Mef(A) | EXACTX | 100.00 | 100.00 | WP_000417519.1 |
| BIIGPAPK_21 | 68916 | 70376 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| BIIGPAPK_24 | 128563 | 129414 | rfbD | 0.0 | Capsule | Immune modulation | 95.07 | 100.00 | WP_014621820 |
| BIIGPAPK_11 | 256816 | 257556 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 94.87 | 100.00 | WP_011681174 |
| BIIGPAPK_11 | 256816 | 257556 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 94.33 | 100.00 | WP_011226046 |
| BIIGPAPK_11 | 257613 | 258980 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 93.93 | 100.00 | WP_011226045 |
| BIIGPAPK_11 | 256816 | 257551 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 93.89 | 98.13 | WP_011227246 |
| BIIGPAPK_24 | 130515 | 131786 | STU_RS16265 | 0.0 | Capsule | Immune modulation | 93.79 | 99.76 | WP_011226331 |
| BIIGPAPK_11 | 253913 | 255373 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 93.71 | 99.93 | WP_011681177 |
| BIIGPAPK_11 | 253913 | 255373 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 93.63 | 100.14 | WP_011226049 |
| BIIGPAPK_11 | 257613 | 258978 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 93.63 | 99.85 | WP_011681173 |
| BIIGPAPK_11 | 253913 | 255373 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 92.88 | 100.14 | WP_041827043 |
| BIIGPAPK_24 | 139629 | 141413 | STU_RS16230 | 0.0 | Capsule | Immune modulation | 92.72 | 100.00 | WP_011226325 |
| BIIGPAPK_24 | 137361 | 138566 | STU_RS16240 | 0.0 | Capsule | Immune modulation | 92.62 | 100.00 | WP_011226326 |
| BIIGPAPK_24 | 135612 | 136568 | STU_RS16250 | 0.0 | Capsule | Immune modulation | 92.48 | 100.00 | WP_011226328 |
| BIIGPAPK_24 | 134467 | 135615 | STU_RS16255 | 0.0 | Capsule | Immune modulation | 92.34 | 100.00 | WP_041828290 |
| BIIGPAPK_24 | 136552 | 137361 | STU_RS16245 | 0.0 | Capsule | Immune modulation | 92.23 | 99.88 | WP_002948020 |
| BIIGPAPK_11 | 255374 | 256105 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 91.67 | 100.00 | WP_011226048 |
| BIIGPAPK_24 | 138586 | 139632 | STU_RS16235 | 0.0 | Capsule | Immune modulation | 91.57 | 99.43 | WP_002948022 |
| BIIGPAPK_11 | 85426 | 86295 | rfbA | 0.0 | Capsule | Immune modulation | 91.49 | 100.00 | WP_011681286 |
| BIIGPAPK_11 | 255374 | 256105 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 91.26 | 100.00 | WP_011681176 |
| BIIGPAPK_23 | 66964 | 68621 | fbp54 | 0.0 | FBPs | Adherence | 91.20 | 99.88 | WP_011227179 |
| BIIGPAPK_11 | 86295 | 86888 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 90.74 | 100.00 | WP_011226149 |
| BIIGPAPK_11 | 255374 | 256105 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 90.71 | 100.00 | WP_011227248 |
| BIIGPAPK_11 | 86295 | 86888 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 90.57 | 100.00 | WP_011226149 |
| BIIGPAPK_11 | 86295 | 86888 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 90.57 | 100.00 | WP_011226149 |
| BIIGPAPK_1 | 22228 | 22989 | cbpD | 0.0 | Autolysin | Exoenzyme | 90.29 | 90.71 | WP_011226733 |
| BIIGPAPK_11 | 256114 | 256806 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 88.62 | 99.86 | WP_011227247 |
| BIIGPAPK_11 | 256114 | 256806 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 88.62 | 99.86 | WP_011226047 |
| BIIGPAPK_25 | 13477 | 14487 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 88.45 | 99.80 | WP_002986042 |
| BIIGPAPK_11 | 256114 | 256806 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 87.46 | 99.86 | WP_011681175 |
| BIIGPAPK_21 | 95771 | 97074 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 87.25 | 99.54 | WP_000022832 |
| BIIGPAPK_23 | 205575 | 206336 | srtA | 0.0 | Sortase A | Exoenzyme | 84.67 | 99.87 | - |
| BIIGPAPK_4 | 16988 | 18271 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.61 | 99.61 | WP_000107753 |
| BIIGPAPK_11 | 87092 | 88138 | rfbB | 0.0 | Capsule | Immune modulation | 80.33 | 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 |
|---|---|---|---|---|---|---|---|---|
| BIIGPAPK_23 | 197440 | 196367 | MntE | 0.0 | manganese homeostasis | 96.09 | 99.72 | ABF32167 |
| BIIGPAPK_23 | 209025 | 210008 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 96.04 | 100.00 | AAK75326 |
| BIIGPAPK_25 | 140293 | 137987 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 94.41 | 99.22 | AAK74619 |
| BIIGPAPK_28 | 43985 | 45466 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 93.12 | 100.00 | ABJ54480 |
| BIIGPAPK_23 | 178380 | 176134 | metE | 0.0 | methionine biosynthesis enzymes | 92.52 | 100.00 | AAK74738 |
| BIIGPAPK_21 | 186902 | 185934 | spr0084 | 0.0 | pathogenitcity related | 92.26 | 98.48 | AAK98888 |
| BIIGPAPK_1 | 37410 | 36439 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 91.67 | 100.00 | ABF36968 |
| BIIGPAPK_23 | 268418 | 261855 | PrtA | 0.0 | serine protease | 90.05 | 101.96 | ABJ55268 |
| BIIGPAPK_11 | 60039 | 61769 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 89.95 | 100.00 | AAK34199 |
| BIIGPAPK_24 | 87919 | 89070 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.58 | 99.74 | AAL00050 |
| BIIGPAPK_24 | 116519 | 118507 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.44 | 100.00 | AE014259_2 |
| BIIGPAPK_26 | 176152 | 174674 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.63 | 100.00 | ADE32434 |
| BIIGPAPK_21 | 97074 | 95773 | Eno | 0.0 | enolase | 86.44 | 99.77 | ABP90468 |
| BIIGPAPK_26 | 160794 | 158902 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.58 | 98.90 | ABP91129 |
| BIIGPAPK_23 | 173215 | 174924 | PGM | 0.0 | phosphoglucomutase | 84.76 | 99.65 | ACH87041 |
| BIIGPAPK_1 | 2093 | 1002 | recA | 0.0 | DNA recombination and repair | 84.64 | 95.36 | AAL00560 |
| BIIGPAPK_26 | 28541 | 29551 | pdh | 0.0 | pyruvate dehydrogenase | 83.09 | 99.70 | ABP91006 |
| BIIGPAPK_23 | 41193 | 42554 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.67 | 99.56 | ABP90420 |
| BIIGPAPK_21 | 111481 | 110591 | bglB | 3.68e-178 | putative phospho--glucosidase | 87.88 | 99.66 | AAK33487 |
| BIIGPAPK_23 | 132524 | 133474 | SP_0676 | 3.39e-170 | transcription facot | 81.39 | 98.45 | AAK74821 |
| BIIGPAPK_23 | 175947 | 175090 | metF | 6.89e-169 | methionine biosynthesis enzymes | 87.76 | 99.31 | AAK74739 |
| BIIGPAPK_8 | 8389 | 9060 | rr01 | 2.66e-128 | response regulator | 84.82 | 99.56 | CAB54566 |
| BIIGPAPK_11 | 208503 | 209207 | covR | 1.27e-126 | responder protein | 85.53 | 100.00 | AAK71319 |
| BIIGPAPK_23 | 169248 | 168577 | ciaR | 2.62e-125 | two component system response regulator | 86.16 | 99.12 | AIK75708 |
| BIIGPAPK_23 | 169248 | 168580 | CiaR | 4.84e-125 | two-component response regulator | 87.44 | 99.55 | AAK74935 |
| BIIGPAPK_11 | 208503 | 209207 | walR | 2.88e-120 | DNA-binding response regulator | 82.13 | 100.00 | ANC99504 |
| BIIGPAPK_27 | 53855 | 53169 | CovR | 3.85e-120 | serves to repress GAS virulence factor-encoding genes | 81.66 | 100.00 | ACE75886 |
| BIIGPAPK_1 | 827 | 432 | SpxA2 | 4.09e-76 | transcriptional regulator | 91.67 | 100.00 | ERL21461 |
| BIIGPAPK_23 | 29727 | 29326 | SpxA1 | 5.61e-70 | transcriptional regulator | 82.84 | 100.00 | ERL19273 |
| BIIGPAPK_2 | 24973 | 25386 | GrpE | 2.43e-68 | protein grpE | 81.88 | 80.59 | ABP89267 |
| BIIGPAPK_27 | 30647 | 30360 | spr0479 | 3.73e-48 | essential gene | 85.42 | 98.97 | AAK99283 |
| BIIGPAPK_21 | 225698 | 225444 | spr1327 | 1.28e-44 | essential gene | 92.94 | 100.00 | AAL00131 |
| BIIGPAPK_26 | 117498 | 117761 | spr0175 | 9.46e-43 | pathogenitcity related | 85.23 | 100.00 | AAK98979 |
| BIIGPAPK_26 | 118322 | 118588 | spr0177 | 2.10e-41 | essential gene | 83.15 | 88.12 | AAK98981 |
| BIIGPAPK_4 | 16821 | 16330 | RopE (M5005_Spy_1611) | 9.60e-74 | probable DNA-directed RNA polymerase subunit delta | 82.93 | 85.86 | AAK34603 |
| BIIGPAPK_25 | 140293 | 137993 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 83.09 | 98.08 | MYN69560 |
| BIIGPAPK_26 | 64964 | 63945 | 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 |
|---|---|---|---|
| BIIGPAPK_1 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_2 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_3 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_4 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_5 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_6 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_7 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_8 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_9 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_10 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_11 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_12 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_13 | 1.0 | 0.0 | 1.0 |
| BIIGPAPK_16 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_17 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_18 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_19 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_20 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_21 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_22 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_23 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_24 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_25 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_26 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_27 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_28 | 0.0 | 1.0 | 0.0 |
| BIIGPAPK_29 | 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)