Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 20 | 28 | 34.47 |
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. |
|---|---|---|---|---|---|---|---|---|
| PEHBHELM_1 | 521988 | 523907 | tet(M) | ARO:3000186 | tet(M) | 98.90 | 100.00 | AB039845.1 |
| PEHBHELM_1 | 520144 | 520881 | ErmB | ARO:3000375 | ErmB | 97.96 | 98.79 | AF242872.1 |
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. |
|---|---|---|---|---|---|---|---|
| PEHBHELM_1 | 520144 | 520881 | erm(B) | Erythromycin, Lincomycin, Clindamycin, Quinupristin, Pristinamycin IA, Virginiamycin S | 100.00 | 100.00 | U86375 |
| PEHBHELM_1 | 521988 | 523907 | tet(M) | Doxycycline, Tetracycline, Minocycline | 99.64 | 100.00 | X92947 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| PEHBHELM_1 | 520147 | 520881 | erm(B) | 23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(B) | EXACTX | 100.00 | 100.00 | WP_001038790.1 |
| PEHBHELM_1 | 521991 | 523907 | tet(M) | tetracycline resistance ribosomal protection protein Tet(M) | EXACTX | 100.00 | 100.00 | WP_000691736.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| PEHBHELM_1 | 612934 | 613649 | STER_RS07085 | 0.0 | Capsule | Immune modulation | 96.51 | 99.86 | WP_011681442 |
| PEHBHELM_1 | 616958 | 617809 | rfbD | 0.0 | Capsule | Immune modulation | 95.07 | 100.00 | WP_014621820 |
| PEHBHELM_1 | 98015 | 98755 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 95.01 | 100.00 | WP_011681174 |
| PEHBHELM_1 | 613651 | 614619 | STER_RS07090 | 0.0 | Capsule | Immune modulation | 94.94 | 100.00 | WP_011681443 |
| PEHBHELM_1 | 98015 | 98755 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 94.33 | 100.00 | WP_011226046 |
| PEHBHELM_1 | 98812 | 100177 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 94.00 | 99.85 | WP_011681173 |
| PEHBHELM_1 | 98015 | 98750 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 93.75 | 98.13 | WP_011227246 |
| PEHBHELM_1 | 95112 | 96572 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 93.63 | 100.00 | WP_011681177 |
| PEHBHELM_1 | 95112 | 96572 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 93.57 | 100.21 | WP_011226049 |
| PEHBHELM_1 | 98812 | 100179 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 93.57 | 100.00 | WP_011226045 |
| PEHBHELM_1 | 95112 | 96572 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 92.81 | 100.21 | WP_041827043 |
| PEHBHELM_1 | 611812 | 612588 | STER_RS07075 | 0.0 | Capsule | Immune modulation | 92.66 | 100.00 | WP_011681440 |
| PEHBHELM_1 | 615586 | 616839 | STER_RS07100 | 0.0 | Capsule | Immune modulation | 92.34 | 99.44 | WP_011681445 |
| PEHBHELM_1 | 96573 | 97304 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 92.08 | 100.00 | WP_011226048 |
| PEHBHELM_1 | 96573 | 97304 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 91.67 | 100.00 | WP_011681176 |
| PEHBHELM_1 | 1920402 | 1920995 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 91.58 | 100.00 | WP_011226149 |
| PEHBHELM_1 | 1920402 | 1920995 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 91.41 | 100.00 | WP_011226149 |
| PEHBHELM_1 | 1920402 | 1920995 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 91.41 | 100.00 | WP_011226149 |
| PEHBHELM_1 | 1919533 | 1920402 | rfbA | 0.0 | Capsule | Immune modulation | 91.15 | 100.00 | WP_011681286 |
| PEHBHELM_1 | 96573 | 97304 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 91.12 | 100.00 | WP_011227248 |
| PEHBHELM_1 | 1168030 | 1168869 | cbpD | 0.0 | Autolysin | Exoenzyme | 91.07 | 100.00 | WP_011226733 |
| PEHBHELM_1 | 206613 | 208271 | fbp54 | 0.0 | FBPs | Adherence | 90.66 | 99.94 | WP_011227179 |
| PEHBHELM_1 | 914984 | 915994 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 88.55 | 99.80 | WP_002986042 |
| PEHBHELM_1 | 1743490 | 1744793 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.32 | 99.54 | WP_000022832 |
| PEHBHELM_1 | 97313 | 98005 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 87.90 | 99.86 | WP_011227247 |
| PEHBHELM_1 | 97313 | 98005 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 87.90 | 99.86 | WP_011226047 |
| PEHBHELM_1 | 97313 | 98005 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 87.32 | 99.86 | WP_011681175 |
| PEHBHELM_1 | 352739 | 353500 | srtA | 0.0 | Sortase A | Exoenzyme | 85.21 | 99.74 | - |
| PEHBHELM_1 | 1921198 | 1922244 | rfbB | 0.0 | Capsule | Immune modulation | 80.90 | 100.00 | WP_009659423 |
| PEHBHELM_1 | 1257569 | 1258852 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.61 | 99.61 | WP_000107753 |
| PEHBHELM_1 | 111006 | 111589 | SPD_RS01775 | 1.16e-156 | Capsule | Immune modulation | 84.13 | 96.04 | WP_001819836 |
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 |
|---|---|---|---|---|---|---|---|---|
| PEHBHELM_1 | 356189 | 357172 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 96.04 | 100.00 | AAK75326 |
| PEHBHELM_1 | 344604 | 343531 | MntE | 0.0 | manganese homeostasis | 95.53 | 99.72 | ABF32167 |
| PEHBHELM_1 | 796157 | 798463 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 94.67 | 99.22 | AAK74619 |
| PEHBHELM_1 | 325545 | 323299 | metE | 0.0 | methionine biosynthesis enzymes | 93.06 | 100.00 | AAK74738 |
| PEHBHELM_1 | 491304 | 492785 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 92.92 | 100.00 | ABJ54480 |
| PEHBHELM_1 | 1650169 | 1651137 | spr0084 | 0.0 | pathogenitcity related | 92.88 | 98.48 | AAK98888 |
| PEHBHELM_1 | 1153609 | 1154580 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 91.67 | 100.00 | ABF36968 |
| PEHBHELM_1 | 1894150 | 1895880 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 89.95 | 100.00 | AAK34199 |
| PEHBHELM_1 | 631243 | 629255 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.59 | 100.00 | AE014259_2 |
| PEHBHELM_1 | 659603 | 658452 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.58 | 99.74 | AAL00050 |
| PEHBHELM_1 | 1118081 | 1116603 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.83 | 100.00 | ADE32434 |
| PEHBHELM_1 | 1743490 | 1744791 | Eno | 0.0 | enolase | 86.44 | 99.77 | ABP90468 |
| PEHBHELM_1 | 1101102 | 1099210 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.74 | 98.90 | ABP91129 |
| PEHBHELM_1 | 1188161 | 1189252 | recA | 0.0 | DNA recombination and repair | 84.64 | 95.36 | AAL00560 |
| PEHBHELM_1 | 192149 | 193510 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.67 | 99.56 | ABP90420 |
| PEHBHELM_1 | 969823 | 970833 | pdh | 1.59e-177 | pyruvate dehydrogenase | 83.98 | 99.70 | ABP91006 |
| PEHBHELM_1 | 1729071 | 1729961 | bglB | 2.17e-176 | putative phospho--glucosidase | 87.20 | 99.66 | AAK33487 |
| PEHBHELM_1 | 280509 | 281459 | SP_0676 | 2.36e-169 | transcription facot | 81.39 | 98.45 | AAK74821 |
| PEHBHELM_1 | 323109 | 322252 | metF | 6.62e-169 | methionine biosynthesis enzymes | 87.76 | 99.31 | AAK74739 |
| PEHBHELM_1 | 49429 | 50133 | covR | 8.92e-126 | responder protein | 85.53 | 100.00 | AAK71319 |
| PEHBHELM_1 | 418276 | 417605 | rr01 | 3.61e-125 | response regulator | 84.38 | 99.56 | CAB54566 |
| PEHBHELM_1 | 315716 | 315045 | ciaR | 2.51e-124 | two component system response regulator | 86.16 | 99.12 | AIK75708 |
| PEHBHELM_1 | 315716 | 315048 | CiaR | 4.60e-124 | two-component response regulator | 87.44 | 99.55 | AAK74935 |
| PEHBHELM_1 | 49429 | 50133 | walR | 2.03e-119 | DNA-binding response regulator | 82.13 | 100.00 | ANC99504 |
| PEHBHELM_1 | 1400122 | 1400808 | CovR | 4.38e-119 | serves to repress GAS virulence factor-encoding genes | 81.66 | 100.00 | ACE75886 |
| PEHBHELM_1 | 1189427 | 1189822 | SpxA2 | 1.97e-74 | transcriptional regulator | 91.67 | 100.00 | ERL21461 |
| PEHBHELM_1 | 180692 | 180291 | SpxA1 | 6.28e-69 | transcriptional regulator | 82.09 | 100.00 | ERL19273 |
| PEHBHELM_1 | 1243904 | 1244317 | GrpE | 1.56e-66 | protein grpE | 81.88 | 80.59 | ABP89267 |
| PEHBHELM_1 | 1259019 | 1259510 | RopE (M5005_Spy_1611) | 9.68e-72 | probable DNA-directed RNA polymerase subunit delta | 82.93 | 85.86 | AAK34603 |
| PEHBHELM_1 | 796157 | 798457 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 83.36 | 98.08 | MYN69560 |
| PEHBHELM_1 | 1006241 | 1005222 | 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. |
|---|---|---|---|---|---|---|
| PEHBHELM_1 | 532184 | 533389 | repUS43 | 1206 / 1206 | 100.00 | CP003584 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| PEHBHELM_1 | 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)