Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 26 | 30 | 39.70 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| CHAIFKFL_1 | 43633 | 44472 | cbpD | 0.0 | Autolysin | Exoenzyme | 100.00 | 100.00 | WP_011226733 |
| CHAIFKFL_1 | 467644 | 468237 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011226149 |
| CHAIFKFL_1 | 467644 | 468237 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | WP_011226149 |
| CHAIFKFL_1 | 467644 | 468237 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | WP_011226149 |
| CHAIFKFL_1 | 1361459 | 1362415 | STU_RS16250 | 0.0 | Capsule | Immune modulation | 99.79 | 100.00 | WP_011226328 |
| CHAIFKFL_1 | 1356605 | 1358389 | STU_RS16230 | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | WP_011226325 |
| CHAIFKFL_1 | 1362412 | 1363560 | STU_RS16255 | 0.0 | Capsule | Immune modulation | 99.65 | 100.00 | WP_041828290 |
| CHAIFKFL_1 | 1360666 | 1361475 | STU_RS16245 | 0.0 | Capsule | Immune modulation | 99.63 | 100.00 | WP_002948020 |
| CHAIFKFL_1 | 1358386 | 1359441 | STU_RS16235 | 0.0 | Capsule | Immune modulation | 99.53 | 100.00 | WP_002948022 |
| CHAIFKFL_1 | 1359461 | 1360666 | STU_RS16240 | 0.0 | Capsule | Immune modulation | 99.50 | 100.00 | WP_011226326 |
| CHAIFKFL_1 | 232077 | 233735 | fbp54 | 0.0 | FBPs | Adherence | 99.46 | 100.00 | WP_011227179 |
| CHAIFKFL_1 | 468237 | 469106 | rfbA | 0.0 | Capsule | Immune modulation | 99.42 | 100.00 | WP_011681286 |
| CHAIFKFL_1 | 1367056 | 1367907 | rfbD | 0.0 | Capsule | Immune modulation | 99.41 | 100.00 | WP_014621820 |
| CHAIFKFL_1 | 1363669 | 1364679 | STU_RS16260 | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | WP_011226330 |
| CHAIFKFL_1 | 356402 | 357133 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 98.91 | 100.00 | WP_011226048 |
| CHAIFKFL_1 | 503004 | 503765 | srtA | 0.0 | Sortase A | Exoenzyme | 98.82 | 100.00 | - |
| CHAIFKFL_1 | 356402 | 357133 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 98.63 | 100.00 | WP_011681176 |
| CHAIFKFL_1 | 422820 | 423609 | cshA | 0.0 | Cell surface hydrophobicity proteins | Adherence | 98.48 | 99.87 | - |
| CHAIFKFL_1 | 354951 | 355691 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 98.38 | 100.00 | WP_011681174 |
| CHAIFKFL_1 | 1364679 | 1365953 | STU_RS16265 | 0.0 | Capsule | Immune modulation | 98.20 | 100.00 | WP_011226331 |
| CHAIFKFL_1 | 357134 | 358588 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 98.14 | 100.00 | WP_011226049 |
| CHAIFKFL_1 | 354951 | 355691 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 98.11 | 100.00 | WP_011226046 |
| CHAIFKFL_1 | 343817 | 345271 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 98.01 | 100.00 | WP_041827043 |
| CHAIFKFL_1 | 354956 | 355691 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 97.96 | 98.13 | WP_011227246 |
| CHAIFKFL_1 | 357134 | 358588 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 97.06 | 99.73 | WP_011681177 |
| CHAIFKFL_1 | 355701 | 356393 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 96.97 | 100.00 | WP_011227247 |
| CHAIFKFL_1 | 355701 | 356393 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 96.97 | 100.00 | WP_011226047 |
| CHAIFKFL_1 | 828541 | 833436 | SAG_RS09105 | 0.0 | Agglutinin receptor | Adherence | 96.94 | 100.00 | WP_000167699 |
| CHAIFKFL_1 | 828541 | 833484 | SSU98_0978 | 0.0 | Agglutinin receptor | Adherence | 95.77 | 99.82 | YP_001200536 |
| CHAIFKFL_1 | 828541 | 833484 | SSU05_0965 | 0.0 | Agglutinin receptor | Adherence | 95.75 | 99.82 | YP_001198331 |
| CHAIFKFL_1 | 355701 | 356393 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 91.63 | 100.00 | WP_011681175 |
| CHAIFKFL_1 | 866890 | 868193 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.17 | 99.54 | WP_000022832 |
| CHAIFKFL_1 | 1651990 | 1653000 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 86.82 | 99.51 | WP_002986042 |
| CHAIFKFL_1 | 1306213 | 1307496 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.50 | 99.77 | WP_000107753 |
| CHAIFKFL_1 | 466169 | 467215 | rfbB | 0.0 | Capsule | Immune modulation | 80.42 | 100.00 | WP_009659423 |
| CHAIFKFL_1 | 340850 | 341433 | SPD_RS01775 | 1.10e-146 | Capsule | Immune modulation | 83.08 | 96.20 | WP_001819836 |
| CHAIFKFL_1 | 343352 | 343816 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 98.71 | 63.52 | WP_011227248 |
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 |
|---|---|---|---|---|---|---|---|---|
| CHAIFKFL_1 | 833457 | 828544 | B9H01_RS04765 | 0.0 | glucan-binding protein | 96.34 | 99.70 | AUS90958 |
| CHAIFKFL_1 | 506452 | 507435 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 94.82 | 100.00 | AAK75326 |
| CHAIFKFL_1 | 700550 | 699477 | MntE | 0.0 | manganese homeostasis | 94.41 | 99.72 | ABF32167 |
| CHAIFKFL_1 | 1535224 | 1537527 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 92.97 | 99.22 | AAK74619 |
| CHAIFKFL_1 | 951829 | 950861 | spr0084 | 0.0 | pathogenitcity related | 92.88 | 98.48 | AAK98888 |
| CHAIFKFL_1 | 680029 | 677783 | metE | 0.0 | methionine biosynthesis enzymes | 91.99 | 100.00 | AAK74738 |
| CHAIFKFL_1 | 600134 | 601615 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 91.90 | 100.00 | ABJ54480 |
| CHAIFKFL_1 | 63271 | 64269 | recA | 0.0 | DNA recombination and repair | 91.29 | 85.82 | AAL00560 |
| CHAIFKFL_1 | 27150 | 28121 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 90.12 | 100.00 | ABF36968 |
| CHAIFKFL_1 | 1418644 | 1417493 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.32 | 99.74 | AAL00050 |
| CHAIFKFL_1 | 1382877 | 1380889 | uvrB | 0.0 | excinuclease ABC, B subunit | 88.99 | 100.00 | AE014259_2 |
| CHAIFKFL_1 | 490256 | 488526 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 87.69 | 100.00 | AAK34199 |
| CHAIFKFL_1 | 1849910 | 1848432 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.63 | 100.00 | ADE32434 |
| CHAIFKFL_1 | 868193 | 866892 | Eno | 0.0 | enolase | 86.21 | 99.77 | ABP90468 |
| CHAIFKFL_1 | 1834714 | 1832822 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 86.05 | 98.90 | ABP91129 |
| CHAIFKFL_1 | 674857 | 676566 | PGM | 0.0 | phosphoglucomutase | 83.89 | 99.65 | ACH87041 |
| CHAIFKFL_1 | 1693955 | 1694965 | pdh | 0.0 | pyruvate dehydrogenase | 83.09 | 99.70 | ABP91006 |
| CHAIFKFL_1 | 257737 | 256385 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.12 | 98.91 | ABP90420 |
| CHAIFKFL_1 | 1744218 | 1742326 | PepO | 0.0 | endopeptidase | 80.03 | 100.00 | ABF32980 |
| CHAIFKFL_1 | 882626 | 881736 | bglB | 1.34e-178 | putative phospho--glucosidase | 88.89 | 99.66 | AAK33487 |
| CHAIFKFL_1 | 174540 | 173605 | SP_0676 | 7.42e-168 | transcription facot | 81.73 | 96.89 | AAK74821 |
| CHAIFKFL_1 | 677591 | 676734 | metF | 1.51e-164 | methionine biosynthesis enzymes | 86.01 | 99.31 | AAK74739 |
| CHAIFKFL_1 | 395126 | 394422 | covR | 1.07e-130 | responder protein | 85.11 | 100.00 | AAK71319 |
| CHAIFKFL_1 | 572081 | 571410 | rr01 | 4.19e-125 | response regulator | 84.38 | 99.56 | CAB54566 |
| CHAIFKFL_1 | 395126 | 394422 | walR | 5.37e-121 | DNA-binding response regulator | 81.28 | 100.00 | ANC99504 |
| CHAIFKFL_1 | 670903 | 670235 | CiaR | 6.42e-120 | two-component response regulator | 85.65 | 99.55 | AAK74935 |
| CHAIFKFL_1 | 670903 | 670232 | ciaR | 6.26e-118 | two component system response regulator | 83.48 | 99.12 | AIK75708 |
| CHAIFKFL_1 | 1158599 | 1157913 | CovR | 1.01e-117 | serves to repress GAS virulence factor-encoding genes | 80.79 | 100.00 | ACE75886 |
| CHAIFKFL_1 | 64545 | 64940 | SpxA2 | 3.72e-74 | transcriptional regulator | 90.91 | 100.00 | ERL21461 |
| CHAIFKFL_1 | 268902 | 269303 | SpxA1 | 3.78e-66 | transcriptional regulator | 80.60 | 100.00 | ERL19273 |
| CHAIFKFL_1 | 1306055 | 1305555 | RopE (M5005_Spy_1611) | 4.94e-75 | probable DNA-directed RNA polymerase subunit delta | 81.44 | 87.43 | AAK34603 |
| CHAIFKFL_1 | 1535224 | 1537521 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 82.94 | 98.08 | MYN69560 |
| CHAIFKFL_1 | 1729817 | 1728798 | 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 |
|---|---|---|---|
| CHAIFKFL_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 |
|---|---|---|---|---|---|
| CHAIFKFL_1 | 808726 | 811615 | False | Unknown | VOG9667, VOG9405, VOG6396, VOG6396, VOG9404 |
Phigaro v2.4.0 (Database: Jan. 2024 release)