Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 17 | 30 | 34.48 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| ICOPOGPD_1 | 517785 | 519043 | STER_RS07100 | 0.0 | Capsule | Immune modulation | 96.67 | 99.92 | WP_011681445 |
| ICOPOGPD_1 | 520090 | 520805 | STER_RS07085 | 0.0 | Capsule | Immune modulation | 94.55 | 99.86 | WP_011681442 |
| ICOPOGPD_1 | 1213366 | 1214097 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 93.99 | 100.00 | WP_011227248 |
| ICOPOGPD_1 | 1213366 | 1214097 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 93.85 | 100.00 | WP_011681176 |
| ICOPOGPD_1 | 516815 | 517666 | rfbD | 0.0 | Capsule | Immune modulation | 93.66 | 100.00 | WP_014621820 |
| ICOPOGPD_1 | 1213366 | 1214097 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 93.31 | 100.00 | WP_011226048 |
| ICOPOGPD_1 | 521151 | 521921 | STER_RS07075 | 0.0 | Capsule | Immune modulation | 92.48 | 99.23 | WP_011681440 |
| ICOPOGPD_1 | 1214098 | 1215558 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 91.47 | 99.86 | WP_011681177 |
| ICOPOGPD_1 | 1359560 | 1360153 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 91.25 | 100.00 | WP_011226149 |
| ICOPOGPD_1 | 1359560 | 1360153 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 91.08 | 100.00 | WP_011226149 |
| ICOPOGPD_1 | 1359560 | 1360153 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 91.08 | 100.00 | WP_011226149 |
| ICOPOGPD_1 | 44141 | 44980 | cbpD | 0.0 | Autolysin | Exoenzyme | 90.86 | 99.88 | WP_011226733 |
| ICOPOGPD_1 | 1214098 | 1215558 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 90.85 | 100.00 | WP_011226049 |
| ICOPOGPD_1 | 1094124 | 1095782 | fbp54 | 0.0 | FBPs | Adherence | 90.24 | 99.94 | WP_011227179 |
| ICOPOGPD_1 | 1214098 | 1215558 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 90.17 | 100.00 | WP_041827043 |
| ICOPOGPD_1 | 1212665 | 1213357 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 89.62 | 99.86 | WP_011226047 |
| ICOPOGPD_1 | 1212665 | 1213357 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 89.34 | 99.86 | WP_011227247 |
| ICOPOGPD_1 | 1212665 | 1213357 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 89.19 | 99.86 | WP_011681175 |
| ICOPOGPD_1 | 1534477 | 1535781 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.25 | 99.62 | WP_000022832 |
| ICOPOGPD_1 | 2000391 | 2001404 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 85.67 | 99.90 | WP_002986042 |
| ICOPOGPD_1 | 919227 | 919988 | srtA | 0.0 | Sortase A | Exoenzyme | 85.21 | 99.74 | - |
| ICOPOGPD_1 | 1358244 | 1359290 | rfbB | 0.0 | Capsule | Immune modulation | 83.97 | 99.90 | WP_002263087 |
| ICOPOGPD_1 | 146325 | 147608 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.92 | 99.61 | WP_000107753 |
| ICOPOGPD_1 | 1360153 | 1361022 | rfbA | 0.0 | Capsule | Immune modulation | 80.28 | 99.77 | WP_002904719 |
| ICOPOGPD_1 | 1211985 | 1212655 | STU_RS14635 | 6.09e-145 | Capsule | Immune modulation | 80.83 | 90.28 | WP_011226046 |
| ICOPOGPD_1 | 1211985 | 1212655 | STER_RS05305 | 2.83e-143 | Capsule | Immune modulation | 80.68 | 90.28 | WP_011681174 |
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 |
|---|---|---|---|---|---|---|---|---|
| ICOPOGPD_1 | 916538 | 915555 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 96.95 | 100.00 | AAK75326 |
| ICOPOGPD_1 | 928125 | 929198 | MntE | 0.0 | manganese homeostasis | 96.09 | 99.72 | ABF32167 |
| ICOPOGPD_1 | 1860237 | 1862543 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 94.28 | 99.22 | AAK74619 |
| ICOPOGPD_1 | 947669 | 949915 | metE | 0.0 | methionine biosynthesis enzymes | 93.19 | 100.00 | AAK74738 |
| ICOPOGPD_1 | 792308 | 790827 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 92.71 | 100.00 | ABJ54480 |
| ICOPOGPD_1 | 1638529 | 1637561 | spr0084 | 0.0 | pathogenitcity related | 92.57 | 98.48 | AAK98888 |
| ICOPOGPD_1 | 26233 | 27204 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 91.67 | 100.00 | ABF36968 |
| ICOPOGPD_1 | 1386388 | 1384658 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 89.95 | 100.00 | AAK34199 |
| ICOPOGPD_1 | 501669 | 503657 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.59 | 100.00 | AE014259_2 |
| ICOPOGPD_1 | 1718026 | 1716875 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.58 | 99.74 | AAL00050 |
| ICOPOGPD_1 | 2205444 | 2203966 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.83 | 100.00 | ADE32434 |
| ICOPOGPD_1 | 1535781 | 1534480 | Eno | 0.0 | enolase | 86.44 | 99.77 | ABP90468 |
| ICOPOGPD_1 | 2190096 | 2188204 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.74 | 98.90 | ABP91129 |
| ICOPOGPD_1 | 952836 | 951127 | PGM | 0.0 | phosphoglucomutase | 84.76 | 99.65 | ACH87041 |
| ICOPOGPD_1 | 66390 | 67481 | recA | 0.0 | DNA recombination and repair | 84.37 | 95.36 | AAL00560 |
| ICOPOGPD_1 | 2050493 | 2051503 | pdh | 0.0 | pyruvate dehydrogenase | 82.79 | 99.70 | ABP91006 |
| ICOPOGPD_1 | 1109709 | 1108348 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.46 | 99.56 | ABP90420 |
| ICOPOGPD_1 | 1550194 | 1549304 | bglB | 2.76e-177 | putative phospho--glucosidase | 87.88 | 99.66 | AAK33487 |
| ICOPOGPD_1 | 994351 | 993401 | SP_0676 | 3.27e-169 | transcription facot | 81.39 | 98.45 | AAK74821 |
| ICOPOGPD_1 | 950105 | 950962 | metF | 1.31e-168 | methionine biosynthesis enzymes | 88.11 | 99.31 | AAK74739 |
| ICOPOGPD_1 | 1423244 | 1424101 | mtsA | 5.75e-150 | substrate-binding lipoprotein of manganese transporter | 80.14 | 92.86 | AIK76191 |
| ICOPOGPD_1 | 1248635 | 1247931 | covR | 9.89e-126 | responder protein | 85.53 | 100.00 | AAK71319 |
| ICOPOGPD_1 | 858939 | 859610 | rr01 | 1.83e-125 | response regulator | 84.38 | 99.56 | CAB54566 |
| ICOPOGPD_1 | 957502 | 958173 | ciaR | 5.23e-125 | two component system response regulator | 86.16 | 99.12 | AIK75708 |
| ICOPOGPD_1 | 957502 | 958164 | CiaR | 1.88e-123 | two-component response regulator | 87.78 | 98.66 | AAK74935 |
| ICOPOGPD_1 | 295576 | 296262 | CovR | 1.86e-119 | serves to repress GAS virulence factor-encoding genes | 82.10 | 100.00 | ACE75886 |
| ICOPOGPD_1 | 1248635 | 1247931 | walR | 2.25e-119 | DNA-binding response regulator | 82.13 | 100.00 | ANC99504 |
| ICOPOGPD_1 | 67656 | 68051 | SpxA2 | 2.18e-74 | transcriptional regulator | 91.67 | 100.00 | ERL21461 |
| ICOPOGPD_1 | 1121938 | 1122339 | SpxA1 | 1.41e-68 | transcriptional regulator | 82.09 | 100.00 | ERL19273 |
| ICOPOGPD_1 | 125878 | 126291 | GrpE | 1.73e-66 | protein grpE | 81.88 | 80.59 | ABP89267 |
| ICOPOGPD_1 | 147775 | 148266 | RopE (M5005_Spy_1611) | 1.07e-71 | probable DNA-directed RNA polymerase subunit delta | 82.93 | 85.86 | AAK34603 |
| ICOPOGPD_1 | 1860237 | 1862537 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 82.97 | 98.08 | MYN69560 |
| ICOPOGPD_1 | 2088249 | 2087230 | ilvC (SPD_0406) | 0.0 | ketol-acid reductoisomerase (NADP(+)) | 85.88 | 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 |
|---|---|---|---|
| ICOPOGPD_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)