Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 23 | 29 | 37.01 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| CFDEGOMB_1 | 94675 | 95934 | STER_RS07100 | 0.0 | Capsule | Immune modulation | 99.76 | 100.00 | WP_011681445 |
| CFDEGOMB_1 | 1753661 | 1754254 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | WP_011226149 |
| CFDEGOMB_1 | 1482261 | 1483919 | fbp54 | 0.0 | FBPs | Adherence | 99.58 | 100.00 | WP_011227179 |
| CFDEGOMB_1 | 1753661 | 1754254 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 99.50 | 100.00 | WP_011226149 |
| CFDEGOMB_1 | 1753661 | 1754254 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 99.50 | 100.00 | WP_011226149 |
| CFDEGOMB_1 | 1754254 | 1755123 | rfbA | 0.0 | Capsule | Immune modulation | 99.42 | 100.00 | WP_011681286 |
| CFDEGOMB_1 | 93702 | 94678 | STER_RS07095 | 0.0 | Capsule | Immune modulation | 99.39 | 99.90 | WP_011681444 |
| CFDEGOMB_1 | 92716 | 93684 | STER_RS07090 | 0.0 | Capsule | Immune modulation | 99.38 | 100.00 | WP_011681443 |
| CFDEGOMB_1 | 630790 | 631629 | cbpD | 0.0 | Autolysin | Exoenzyme | 99.29 | 100.00 | WP_011226733 |
| CFDEGOMB_1 | 1624953 | 1626407 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 98.90 | 100.00 | WP_011226049 |
| CFDEGOMB_1 | 1624221 | 1624952 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 98.63 | 100.00 | WP_011681176 |
| CFDEGOMB_1 | 1624221 | 1624952 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 98.63 | 100.00 | WP_011226048 |
| CFDEGOMB_1 | 1622770 | 1623510 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 98.52 | 100.00 | WP_011681174 |
| CFDEGOMB_1 | 1624221 | 1624952 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 98.50 | 100.00 | WP_011227248 |
| CFDEGOMB_1 | 96053 | 96904 | rfbD | 0.0 | Capsule | Immune modulation | 98.47 | 100.00 | WP_014621820 |
| CFDEGOMB_1 | 91999 | 92714 | STER_RS07085 | 0.0 | Capsule | Immune modulation | 98.32 | 99.86 | WP_011681442 |
| CFDEGOMB_1 | 1612794 | 1614209 | STER_RS05250 | 0.0 | Capsule | Immune modulation | 98.23 | 100.00 | WP_011681165 |
| CFDEGOMB_1 | 1622770 | 1623510 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 98.11 | 100.00 | WP_011226046 |
| CFDEGOMB_1 | 1624953 | 1626407 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 98.08 | 100.00 | WP_041827043 |
| CFDEGOMB_1 | 1789022 | 1789783 | srtA | 0.0 | Sortase A | Exoenzyme | 97.77 | 100.00 | - |
| CFDEGOMB_1 | 1697296 | 1698095 | cshA | 0.0 | Cell surface hydrophobicity proteins | Adherence | 97.75 | 100.88 | - |
| CFDEGOMB_1 | 1623520 | 1624212 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 97.69 | 100.00 | WP_011227247 |
| CFDEGOMB_1 | 1623520 | 1624212 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 97.69 | 100.00 | WP_011226047 |
| CFDEGOMB_1 | 1622775 | 1623510 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 97.69 | 98.13 | WP_011227246 |
| CFDEGOMB_1 | 90877 | 91653 | STER_RS07075 | 0.0 | Capsule | Immune modulation | 97.68 | 100.00 | WP_011681440 |
| CFDEGOMB_1 | 1624953 | 1626407 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 97.47 | 99.79 | WP_011681177 |
| CFDEGOMB_1 | 1621346 | 1622713 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 95.69 | 100.00 | WP_011226045 |
| CFDEGOMB_1 | 1621348 | 1622713 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 93.78 | 99.85 | WP_011681173 |
| CFDEGOMB_1 | 1623520 | 1624212 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 90.91 | 100.00 | WP_011681175 |
| CFDEGOMB_1 | 1184427 | 1185730 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.09 | 99.54 | WP_000022832 |
| CFDEGOMB_1 | 376639 | 377649 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 86.63 | 99.51 | WP_002986042 |
| CFDEGOMB_1 | 725191 | 726474 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.73 | 99.77 | WP_000107753 |
| CFDEGOMB_1 | 1752186 | 1753232 | rfbB | 0.0 | Capsule | Immune modulation | 80.61 | 100.00 | WP_009659423 |
| CFDEGOMB_1 | 1610391 | 1610974 | SPD_RS01775 | 1.11e-151 | Capsule | Immune modulation | 83.59 | 96.20 | 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 |
|---|---|---|---|---|---|---|---|---|
| CFDEGOMB_1 | 1792470 | 1793453 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 94.82 | 100.00 | AAK75326 |
| CFDEGOMB_1 | 1336298 | 1337371 | MntE | 0.0 | manganese homeostasis | 94.41 | 99.72 | ABF32167 |
| CFDEGOMB_1 | 266977 | 269280 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 92.97 | 99.22 | AAK74619 |
| CFDEGOMB_1 | 1100824 | 1101792 | spr0084 | 0.0 | pathogenitcity related | 92.88 | 98.48 | AAK98888 |
| CFDEGOMB_1 | 1356789 | 1359035 | metE | 0.0 | methionine biosynthesis enzymes | 91.99 | 100.00 | AAK74738 |
| CFDEGOMB_1 | 1873904 | 1875385 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 91.70 | 100.00 | ABJ54480 |
| CFDEGOMB_1 | 651647 | 652645 | recA | 0.0 | DNA recombination and repair | 91.29 | 85.82 | AAL00560 |
| CFDEGOMB_1 | 614072 | 615043 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 90.12 | 100.00 | ABF36968 |
| CFDEGOMB_1 | 145424 | 144273 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.58 | 99.74 | AAL00050 |
| CFDEGOMB_1 | 110122 | 108134 | uvrB | 0.0 | excinuclease ABC, B subunit | 88.99 | 100.00 | AE014259_2 |
| CFDEGOMB_1 | 1776272 | 1774542 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 87.87 | 100.00 | AAK34199 |
| CFDEGOMB_1 | 575902 | 574424 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.42 | 100.00 | ADE32434 |
| CFDEGOMB_1 | 1184427 | 1185728 | Eno | 0.0 | enolase | 86.21 | 99.77 | ABP90468 |
| CFDEGOMB_1 | 561164 | 559272 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.74 | 98.90 | ABP91129 |
| CFDEGOMB_1 | 1361960 | 1360251 | PGM | 0.0 | phosphoglucomutase | 84.06 | 99.65 | ACH87041 |
| CFDEGOMB_1 | 419606 | 420616 | pdh | 0.0 | pyruvate dehydrogenase | 83.09 | 99.70 | ABP91006 |
| CFDEGOMB_1 | 1527803 | 1526442 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.24 | 99.56 | ABP90420 |
| CFDEGOMB_1 | 469884 | 467992 | PepO | 0.0 | endopeptidase | 80.19 | 100.00 | ABF32980 |
| CFDEGOMB_1 | 1169987 | 1170877 | bglB | 1.36e-178 | putative phospho--glucosidase | 88.89 | 99.66 | AAK33487 |
| CFDEGOMB_1 | 1434409 | 1433474 | SP_0676 | 7.57e-168 | transcription facot | 81.73 | 96.89 | AAK74821 |
| CFDEGOMB_1 | 1359227 | 1360084 | metF | 8.86e-165 | methionine biosynthesis enzymes | 86.36 | 99.31 | AAK74739 |
| CFDEGOMB_1 | 1665904 | 1665200 | covR | 4.36e-131 | responder protein | 85.53 | 100.00 | AAK71319 |
| CFDEGOMB_1 | 1845805 | 1845134 | rr01 | 1.31e-122 | response regulator | 83.04 | 99.56 | CAB54566 |
| CFDEGOMB_1 | 1665904 | 1665200 | walR | 2.04e-121 | DNA-binding response regulator | 81.70 | 100.00 | ANC99504 |
| CFDEGOMB_1 | 1365916 | 1366602 | CiaR | 6.00e-118 | two-component response regulator | 83.84 | 101.79 | AAK74935 |
| CFDEGOMB_1 | 882612 | 883298 | CovR | 3.36e-117 | serves to repress GAS virulence factor-encoding genes | 80.35 | 100.00 | ACE75886 |
| CFDEGOMB_1 | 1365916 | 1366605 | ciaR | 1.59e-116 | two component system response regulator | 81.74 | 101.33 | AIK75708 |
| CFDEGOMB_1 | 652921 | 653295 | SpxA2 | 1.18e-69 | transcriptional regulator | 91.20 | 94.70 | ERL21461 |
| CFDEGOMB_1 | 1539219 | 1539620 | SpxA1 | 3.86e-66 | transcriptional regulator | 80.60 | 100.00 | ERL19273 |
| CFDEGOMB_1 | 726632 | 727132 | RopE (M5005_Spy_1611) | 5.05e-75 | probable DNA-directed RNA polymerase subunit delta | 81.44 | 87.43 | AAK34603 |
| CFDEGOMB_1 | 266977 | 269274 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 82.94 | 98.08 | MYN69560 |
| CFDEGOMB_1 | 455430 | 454411 | ilvC (SPD_0406) | 0.0 | ketol-acid reductoisomerase (NADP(+)) | 96.47 | 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 |
|---|---|---|---|
| CFDEGOMB_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)