Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 19 | 33 | 38.13 |
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. |
|---|---|---|---|---|---|---|---|
| PGOPPEHA_1 | 173331 | 174548 | mef(A) | Erythromycin, Azithromycin | 100.00 | 100.00 | U83667 |
| PGOPPEHA_1 | 171748 | 173211 | 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. |
|---|---|---|---|---|---|---|---|---|
| PGOPPEHA_1 | 173334 | 174548 | mef(A) | macrolide efflux MFS transporter Mef(A) | EXACTX | 100.00 | 100.00 | WP_000417519.1 |
| PGOPPEHA_1 | 171751 | 173211 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| PGOPPEHA_5 | 70513 | 71228 | STER_RS07085 | 0.0 | Capsule | Immune modulation | 96.51 | 99.86 | WP_011681442 |
| PGOPPEHA_5 | 67323 | 68576 | STER_RS07100 | 0.0 | Capsule | Immune modulation | 95.14 | 99.44 | WP_011681445 |
| PGOPPEHA_5 | 66353 | 67204 | rfbD | 0.0 | Capsule | Immune modulation | 94.95 | 100.00 | WP_014621820 |
| PGOPPEHA_5 | 69543 | 70511 | STER_RS07090 | 0.0 | Capsule | Immune modulation | 94.84 | 100.00 | WP_011681443 |
| PGOPPEHA_12 | 55059 | 56426 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 94.15 | 100.00 | WP_011226045 |
| PGOPPEHA_12 | 55059 | 56424 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 94.14 | 99.85 | WP_011681173 |
| PGOPPEHA_12 | 51359 | 52819 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 93.70 | 100.00 | WP_011681177 |
| PGOPPEHA_12 | 51359 | 52819 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 93.63 | 100.21 | WP_011226049 |
| PGOPPEHA_12 | 54262 | 55002 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 93.52 | 100.00 | WP_011681174 |
| PGOPPEHA_5 | 71574 | 72344 | STER_RS07075 | 0.0 | Capsule | Immune modulation | 93.26 | 99.23 | WP_011681440 |
| PGOPPEHA_12 | 51359 | 52819 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 92.88 | 100.21 | WP_041827043 |
| PGOPPEHA_12 | 54262 | 55002 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 92.85 | 100.00 | WP_011226046 |
| PGOPPEHA_12 | 54262 | 54997 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 92.25 | 98.13 | WP_011227246 |
| PGOPPEHA_3 | 122682 | 123275 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 91.75 | 100.00 | WP_011226149 |
| PGOPPEHA_12 | 52820 | 53551 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 91.67 | 100.00 | WP_011226048 |
| PGOPPEHA_3 | 122682 | 123275 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 91.58 | 100.00 | WP_011226149 |
| PGOPPEHA_3 | 122682 | 123275 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 91.58 | 100.00 | WP_011226149 |
| PGOPPEHA_3 | 123275 | 124144 | rfbA | 0.0 | Capsule | Immune modulation | 91.49 | 100.00 | WP_011681286 |
| PGOPPEHA_12 | 52820 | 53551 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 91.26 | 100.00 | WP_011681176 |
| PGOPPEHA_12 | 52820 | 53551 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 90.71 | 100.00 | WP_011227248 |
| PGOPPEHA_1 | 106421 | 108079 | fbp54 | 0.0 | FBPs | Adherence | 90.66 | 99.94 | WP_011227179 |
| PGOPPEHA_22 | 19906 | 20745 | cbpD | 0.0 | Autolysin | Exoenzyme | 89.92 | 99.76 | WP_011226733 |
| PGOPPEHA_2 | 182664 | 183967 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.24 | 99.54 | WP_000022832 |
| PGOPPEHA_12 | 53560 | 54252 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 87.90 | 99.86 | WP_011227247 |
| PGOPPEHA_12 | 53560 | 54252 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 87.90 | 99.86 | WP_011226047 |
| PGOPPEHA_29 | 14337 | 15347 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 87.36 | 99.80 | WP_002986042 |
| PGOPPEHA_12 | 53560 | 54252 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 87.32 | 99.86 | WP_011681175 |
| PGOPPEHA_24 | 3852 | 4613 | srtA | 0.0 | Sortase A | Exoenzyme | 83.90 | 99.74 | - |
| PGOPPEHA_3 | 121433 | 122479 | rfbB | 0.0 | Capsule | Immune modulation | 81.98 | 99.90 | WP_009659423 |
| PGOPPEHA_8 | 1949 | 3232 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.61 | 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 |
|---|---|---|---|---|---|---|---|---|
| PGOPPEHA_24 | 1163 | 189 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 96.31 | 99.09 | AAK75326 |
| PGOPPEHA_24 | 12748 | 13821 | MntE | 0.0 | manganese homeostasis | 95.53 | 99.72 | ABF32167 |
| PGOPPEHA_9 | 32064 | 29758 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 94.41 | 99.22 | AAK74619 |
| PGOPPEHA_11 | 55767 | 57248 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 93.52 | 100.00 | ABJ54480 |
| PGOPPEHA_24 | 32288 | 34534 | metE | 0.0 | methionine biosynthesis enzymes | 93.19 | 100.00 | AAK74738 |
| PGOPPEHA_2 | 92870 | 93838 | spr0084 | 0.0 | pathogenitcity related | 92.88 | 98.48 | AAK98888 |
| PGOPPEHA_22 | 4311 | 5282 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 91.67 | 100.00 | ABF36968 |
| PGOPPEHA_3 | 149525 | 147795 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 89.95 | 100.00 | AAK34199 |
| PGOPPEHA_5 | 52490 | 54478 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.59 | 100.00 | AE014259_2 |
| PGOPPEHA_5 | 24152 | 25303 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.58 | 99.74 | AAL00050 |
| PGOPPEHA_18 | 25841 | 27319 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.63 | 100.00 | ADE32434 |
| PGOPPEHA_2 | 182664 | 183965 | Eno | 0.0 | enolase | 86.44 | 99.77 | ABP90468 |
| PGOPPEHA_18 | 41195 | 43087 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.74 | 98.90 | ABP91129 |
| PGOPPEHA_1 | 1957 | 248 | PGM | 0.0 | phosphoglucomutase | 84.94 | 99.65 | ACH87041 |
| PGOPPEHA_36 | 2043 | 952 | recA | 0.0 | DNA recombination and repair | 84.64 | 95.36 | AAL00560 |
| PGOPPEHA_6 | 28926 | 29936 | pdh | 0.0 | pyruvate dehydrogenase | 83.38 | 99.70 | ABP91006 |
| PGOPPEHA_1 | 133979 | 132618 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.46 | 99.56 | ABP90420 |
| PGOPPEHA_2 | 168248 | 169138 | bglB | 1.99e-177 | putative phospho--glucosidase | 87.20 | 99.66 | AAK33487 |
| PGOPPEHA_1 | 41138 | 40188 | SP_0676 | 3.73e-170 | transcription facot | 81.39 | 98.45 | AAK74821 |
| PGOPPEHA_24 | 34724 | 35581 | metF | 1.53e-169 | methionine biosynthesis enzymes | 87.06 | 99.31 | AAK74739 |
| PGOPPEHA_12 | 6586 | 7290 | covR | 2.99e-127 | responder protein | 85.53 | 100.00 | AAK71319 |
| PGOPPEHA_16 | 27247 | 27918 | rr01 | 3.62e-126 | response regulator | 83.93 | 99.56 | CAB54566 |
| PGOPPEHA_1 | 5924 | 6595 | ciaR | 2.25e-125 | two component system response regulator | 86.16 | 99.12 | AIK75708 |
| PGOPPEHA_1 | 5924 | 6592 | CiaR | 4.15e-125 | two-component response regulator | 87.44 | 99.55 | AAK74935 |
| PGOPPEHA_12 | 6586 | 7290 | walR | 6.80e-121 | DNA-binding response regulator | 82.13 | 100.00 | ANC99504 |
| PGOPPEHA_4 | 74293 | 74979 | CovR | 2.83e-120 | serves to repress GAS virulence factor-encoding genes | 81.66 | 100.00 | ACE75886 |
| PGOPPEHA_36 | 779 | 384 | SpxA2 | 4.67e-77 | transcriptional regulator | 91.67 | 100.00 | ERL21461 |
| PGOPPEHA_1 | 145447 | 145848 | SpxA1 | 6.00e-70 | transcriptional regulator | 82.84 | 100.00 | ERL19273 |
| PGOPPEHA_25 | 6204 | 5791 | GrpE | 1.97e-68 | protein grpE | 81.88 | 80.59 | ABP89267 |
| PGOPPEHA_4 | 97505 | 97792 | spr0479 | 3.43e-48 | essential gene | 85.42 | 98.97 | AAK99283 |
| PGOPPEHA_2 | 50593 | 50847 | spr1327 | 8.38e-45 | essential gene | 92.94 | 100.00 | AAL00131 |
| PGOPPEHA_20 | 2731 | 2994 | spr0175 | 2.49e-43 | pathogenitcity related | 85.23 | 100.00 | AAK98979 |
| PGOPPEHA_20 | 3557 | 3823 | spr0177 | 3.47e-42 | essential gene | 83.15 | 88.12 | AAK98981 |
| PGOPPEHA_8 | 3399 | 3890 | RopE (M5005_Spy_1611) | 4.18e-73 | probable DNA-directed RNA polymerase subunit delta | 82.93 | 85.86 | AAK34603 |
| PGOPPEHA_9 | 32064 | 29764 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 83.09 | 98.08 | MYN69560 |
| PGOPPEHA_6 | 65642 | 64623 | 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 |
|---|---|---|---|
| PGOPPEHA_1 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_2 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_3 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_4 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_5 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_6 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_7 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_8 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_9 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_10 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_11 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_12 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_13 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_14 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_15 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_16 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_17 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_18 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_19 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_20 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_21 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_22 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_23 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_24 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_25 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_26 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_27 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_28 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_29 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_30 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_31 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_32 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_33 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_34 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_35 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_36 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_38 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_39 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_40 | 0.0 | 1.0 | 0.0 |
| PGOPPEHA_41 | 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)