Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 27 | 28 | 38.90 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| LLCDOFAL_1 | 1138395 | 1139264 | rfbA | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011681286 |
| LLCDOFAL_1 | 1137802 | 1138395 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011226149 |
| LLCDOFAL_1 | 1353053 | 1354312 | STER_RS07100 | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011681445 |
| LLCDOFAL_1 | 1349255 | 1350031 | STER_RS07075 | 0.0 | Capsule | Immune modulation | 99.87 | 100.00 | WP_011681440 |
| LLCDOFAL_1 | 1137802 | 1138395 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | WP_011226149 |
| LLCDOFAL_1 | 1347988 | 1349136 | STER_RS07070 | 0.0 | Capsule | Immune modulation | 99.74 | 100.00 | WP_011681439 |
| LLCDOFAL_1 | 1137802 | 1138395 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | WP_011226149 |
| LLCDOFAL_1 | 1352080 | 1353056 | STER_RS07095 | 0.0 | Capsule | Immune modulation | 99.59 | 99.90 | WP_011681444 |
| LLCDOFAL_1 | 1347050 | 1347991 | STER_RS07065 | 0.0 | Capsule | Immune modulation | 99.58 | 100.00 | WP_011681438 |
| LLCDOFAL_1 | 43553 | 44392 | cbpD | 0.0 | Autolysin | Exoenzyme | 99.52 | 100.00 | WP_011226733 |
| LLCDOFAL_1 | 886040 | 887698 | fbp54 | 0.0 | FBPs | Adherence | 99.52 | 100.00 | WP_011227179 |
| LLCDOFAL_1 | 1346244 | 1347050 | STER_RS07060 | 0.0 | Capsule | Immune modulation | 99.50 | 100.00 | WP_011681437 |
| LLCDOFAL_1 | 1347988 | 1349136 | STR_RS06910 | 0.0 | Capsule | Immune modulation | 99.48 | 100.00 | WP_011227431 |
| LLCDOFAL_1 | 1347050 | 1347991 | STR_RS06905 | 0.0 | Capsule | Immune modulation | 99.47 | 100.00 | WP_011227430 |
| LLCDOFAL_1 | 1341891 | 1343636 | STER_RS07045 | 0.0 | Capsule | Immune modulation | 99.37 | 100.00 | WP_011681434 |
| LLCDOFAL_1 | 1350377 | 1351092 | STER_RS07085 | 0.0 | Capsule | Immune modulation | 99.30 | 99.86 | WP_011681442 |
| LLCDOFAL_1 | 1351094 | 1352062 | STER_RS07090 | 0.0 | Capsule | Immune modulation | 99.28 | 100.00 | WP_011681443 |
| LLCDOFAL_1 | 1346244 | 1347050 | STR_RS06900 | 0.0 | Capsule | Immune modulation | 99.26 | 100.00 | WP_011227429 |
| LLCDOFAL_1 | 1173162 | 1173923 | srtA | 0.0 | Sortase A | Exoenzyme | 99.08 | 100.00 | - |
| LLCDOFAL_1 | 1003194 | 1003925 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 98.50 | 100.00 | WP_011681176 |
| LLCDOFAL_1 | 1003194 | 1003925 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 98.50 | 100.00 | WP_011226048 |
| LLCDOFAL_1 | 1080058 | 1080851 | cshA | 0.0 | Cell surface hydrophobicity proteins | Adherence | 98.36 | 100.25 | - |
| LLCDOFAL_1 | 1354431 | 1355282 | rfbD | 0.0 | Capsule | Immune modulation | 98.36 | 100.00 | WP_014621820 |
| LLCDOFAL_1 | 1003194 | 1003925 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 98.36 | 100.00 | WP_011227248 |
| LLCDOFAL_1 | 1341891 | 1343636 | STR_RS06885 | 0.0 | Capsule | Immune modulation | 98.05 | 100.00 | WP_011227426 |
| LLCDOFAL_1 | 993188 | 994603 | STER_RS05250 | 0.0 | Capsule | Immune modulation | 97.88 | 100.00 | WP_011681165 |
| LLCDOFAL_1 | 1001743 | 1002483 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 97.44 | 99.87 | WP_011681174 |
| LLCDOFAL_1 | 1003926 | 1005386 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 97.33 | 100.00 | WP_011681177 |
| LLCDOFAL_1 | 1001743 | 1002483 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 97.03 | 99.87 | WP_011226046 |
| LLCDOFAL_1 | 1002493 | 1003185 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 96.83 | 99.86 | WP_011226047 |
| LLCDOFAL_1 | 1001748 | 1002483 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 96.74 | 98.00 | WP_011227246 |
| LLCDOFAL_1 | 1002493 | 1003185 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 96.54 | 100.00 | WP_011227247 |
| LLCDOFAL_1 | 1003926 | 1005386 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 96.03 | 100.21 | WP_011226049 |
| LLCDOFAL_1 | 1003926 | 1005386 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 95.55 | 100.21 | WP_041827043 |
| LLCDOFAL_1 | 1000321 | 1001686 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 95.46 | 99.85 | WP_011681173 |
| LLCDOFAL_1 | 1000319 | 1001686 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 94.08 | 100.00 | WP_011226045 |
| LLCDOFAL_1 | 1002493 | 1003185 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 89.90 | 100.00 | WP_011681175 |
| LLCDOFAL_1 | 637095 | 638398 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.17 | 99.54 | WP_000022832 |
| LLCDOFAL_1 | 1646181 | 1647191 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 86.66 | 99.90 | WP_002986042 |
| LLCDOFAL_1 | 1345021 | 1346244 | SGO_RS05025 | 0.0 | Capsule | Immune modulation | 84.92 | 99.92 | WP_012000441 |
| LLCDOFAL_1 | 1346244 | 1347050 | SGO_RS05020 | 0.0 | Capsule | Immune modulation | 83.27 | 100.00 | WP_012000440 |
| LLCDOFAL_1 | 153837 | 155120 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.73 | 99.77 | WP_000107753 |
| LLCDOFAL_1 | 1136327 | 1137373 | rfbB | 0.0 | Capsule | Immune modulation | 80.61 | 100.00 | WP_009659423 |
| LLCDOFAL_1 | 1345507 | 1346244 | STR_RS06895 | 0.0 | Capsule | Immune modulation | 96.61 | 61.35 | WP_011227428 |
| LLCDOFAL_1 | 1345507 | 1346244 | STER_RS07055 | 0.0 | Capsule | Immune modulation | 96.34 | 61.35 | WP_011681436 |
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 |
|---|---|---|---|---|---|---|---|---|
| LLCDOFAL_1 | 1176610 | 1177593 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 94.51 | 100.00 | AAK75326 |
| LLCDOFAL_1 | 741662 | 742735 | MntE | 0.0 | manganese homeostasis | 94.41 | 99.72 | ABF32167 |
| LLCDOFAL_1 | 1530825 | 1533128 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 93.10 | 99.22 | AAK74619 |
| LLCDOFAL_1 | 553413 | 554381 | spr0084 | 0.0 | pathogenitcity related | 92.26 | 98.48 | AAK98888 |
| LLCDOFAL_1 | 1245745 | 1247226 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 92.11 | 100.00 | ABJ54480 |
| LLCDOFAL_1 | 763874 | 766120 | metE | 0.0 | methionine biosynthesis enzymes | 91.99 | 100.00 | AAK74738 |
| LLCDOFAL_1 | 64404 | 65402 | recA | 0.0 | DNA recombination and repair | 91.29 | 85.82 | AAL00560 |
| LLCDOFAL_1 | 27066 | 28037 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 90.12 | 100.00 | ABF36968 |
| LLCDOFAL_1 | 1404674 | 1403523 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.32 | 99.74 | AAL00050 |
| LLCDOFAL_1 | 1368456 | 1366468 | uvrB | 0.0 | excinuclease ABC, B subunit | 88.84 | 100.00 | AE014259_2 |
| LLCDOFAL_1 | 1160412 | 1158682 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 88.22 | 100.00 | AAK34199 |
| LLCDOFAL_1 | 1843260 | 1841782 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.63 | 100.00 | ADE32434 |
| LLCDOFAL_1 | 637095 | 638396 | Eno | 0.0 | enolase | 86.21 | 99.77 | ABP90468 |
| LLCDOFAL_1 | 1828525 | 1826633 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.74 | 98.90 | ABP91129 |
| LLCDOFAL_1 | 769045 | 767336 | PGM | 0.0 | phosphoglucomutase | 83.89 | 99.65 | ACH87041 |
| LLCDOFAL_1 | 1688137 | 1689147 | pdh | 0.0 | pyruvate dehydrogenase | 82.79 | 99.70 | ABP91006 |
| LLCDOFAL_1 | 922914 | 921553 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.24 | 99.56 | ABP90420 |
| LLCDOFAL_1 | 1738452 | 1736560 | PepO | 0.0 | endopeptidase | 80.03 | 100.00 | ABF32980 |
| LLCDOFAL_1 | 622657 | 623547 | bglB | 1.33e-178 | putative phospho--glucosidase | 88.89 | 99.66 | AAK33487 |
| LLCDOFAL_1 | 832528 | 831593 | SP_0676 | 7.40e-168 | transcription facot | 81.73 | 96.89 | AAK74821 |
| LLCDOFAL_1 | 766312 | 767169 | metF | 1.53e-164 | methionine biosynthesis enzymes | 86.36 | 99.31 | AAK74739 |
| LLCDOFAL_1 | 1043598 | 1042894 | covR | 2.65e-130 | responder protein | 85.11 | 100.00 | AAK71319 |
| LLCDOFAL_1 | 1226771 | 1226100 | rr01 | 3.01e-124 | response regulator | 83.93 | 99.56 | CAB54566 |
| LLCDOFAL_1 | 1043598 | 1042894 | walR | 1.58e-120 | DNA-binding response regulator | 81.28 | 100.00 | ANC99504 |
| LLCDOFAL_1 | 772999 | 773667 | CiaR | 1.75e-120 | two-component response regulator | 85.65 | 99.55 | AAK74935 |
| LLCDOFAL_1 | 772999 | 773670 | ciaR | 2.09e-118 | two component system response regulator | 83.48 | 99.12 | AIK75708 |
| LLCDOFAL_1 | 309625 | 310311 | CovR | 3.10e-118 | serves to repress GAS virulence factor-encoding genes | 81.22 | 100.00 | ACE75886 |
| LLCDOFAL_1 | 65678 | 66052 | SpxA2 | 1.15e-69 | transcriptional regulator | 91.20 | 94.70 | ERL21461 |
| LLCDOFAL_1 | 155278 | 155778 | RopE (M5005_Spy_1611) | 4.93e-75 | probable DNA-directed RNA polymerase subunit delta | 81.44 | 87.43 | AAK34603 |
| LLCDOFAL_1 | 1530825 | 1533122 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 83.07 | 98.08 | MYN69560 |
| LLCDOFAL_1 | 1723999 | 1722980 | 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 |
|---|---|---|---|
| LLCDOFAL_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)