Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 26 | 33 | 42.01 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| GEEKBGBJ_3 | 53589 | 54458 | rfbA | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011681286 |
| GEEKBGBJ_3 | 52996 | 53589 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011226149 |
| GEEKBGBJ_14 | 87796 | 88605 | STU_RS16245 | 0.0 | Capsule | Immune modulation | 99.88 | 100.00 | WP_002948020 |
| GEEKBGBJ_3 | 52996 | 53589 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | WP_011226149 |
| GEEKBGBJ_3 | 52996 | 53589 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | WP_011226149 |
| GEEKBGBJ_14 | 83735 | 85519 | STU_RS16230 | 0.0 | Capsule | Immune modulation | 99.50 | 100.00 | WP_011226325 |
| GEEKBGBJ_14 | 88589 | 89545 | STU_RS16250 | 0.0 | Capsule | Immune modulation | 99.48 | 100.00 | WP_011226328 |
| GEEKBGBJ_1 | 157486 | 159144 | fbp54 | 0.0 | FBPs | Adherence | 99.46 | 100.00 | WP_011227179 |
| GEEKBGBJ_14 | 86591 | 87796 | STU_RS16240 | 0.0 | Capsule | Immune modulation | 99.25 | 100.00 | WP_011226326 |
| GEEKBGBJ_36 | 14653 | 15414 | srtA | 0.0 | Sortase A | Exoenzyme | 99.08 | 100.00 | - |
| GEEKBGBJ_14 | 85516 | 86571 | STU_RS16235 | 0.0 | Capsule | Immune modulation | 99.05 | 100.00 | WP_002948022 |
| GEEKBGBJ_57 | 46612 | 47580 | cbpD | 0.0 | Autolysin | Exoenzyme | 98.76 | 100.00 | WP_082302295 |
| GEEKBGBJ_14 | 92386 | 93348 | STU_RS16260 | 0.0 | Capsule | Immune modulation | 98.75 | 95.25 | WP_011226330 |
| GEEKBGBJ_1 | 46686 | 47417 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 98.63 | 100.00 | WP_011681176 |
| GEEKBGBJ_14 | 95725 | 96576 | rfbD | 0.0 | Capsule | Immune modulation | 98.59 | 100.00 | WP_014621820 |
| GEEKBGBJ_14 | 89542 | 90690 | STU_RS16255 | 0.0 | Capsule | Immune modulation | 98.52 | 100.00 | WP_041828290 |
| GEEKBGBJ_1 | 46686 | 47417 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 98.36 | 100.00 | WP_011226048 |
| GEEKBGBJ_1 | 45231 | 46685 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 98.35 | 100.00 | WP_041827043 |
| GEEKBGBJ_1 | 57430 | 58845 | STER_RS05250 | 0.0 | Capsule | Immune modulation | 98.31 | 100.00 | WP_011681165 |
| GEEKBGBJ_21 | 21972 | 22760 | cshA | 0.0 | Cell surface hydrophobicity proteins | Adherence | 98.23 | 99.75 | - |
| GEEKBGBJ_1 | 46686 | 47417 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 98.22 | 100.00 | WP_011227248 |
| GEEKBGBJ_1 | 45231 | 46685 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 98.01 | 100.00 | WP_011226049 |
| GEEKBGBJ_1 | 48128 | 48868 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 97.84 | 100.00 | WP_011226046 |
| GEEKBGBJ_1 | 47426 | 48118 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 97.83 | 100.00 | WP_011227247 |
| GEEKBGBJ_1 | 47426 | 48118 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 97.83 | 100.00 | WP_011226047 |
| GEEKBGBJ_1 | 48128 | 48868 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 97.71 | 100.00 | WP_011681174 |
| GEEKBGBJ_14 | 93351 | 94622 | STU_RS16265 | 0.0 | Capsule | Immune modulation | 97.64 | 99.76 | WP_011226331 |
| GEEKBGBJ_1 | 48128 | 48863 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 97.42 | 98.13 | WP_011227246 |
| GEEKBGBJ_1 | 45231 | 46685 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 97.12 | 99.79 | WP_011681177 |
| GEEKBGBJ_1 | 48926 | 50292 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 95.25 | 99.93 | WP_011226045 |
| GEEKBGBJ_1 | 48926 | 50290 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 93.26 | 99.78 | WP_011681173 |
| GEEKBGBJ_1 | 47426 | 48118 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 91.20 | 100.00 | WP_011681175 |
| GEEKBGBJ_2 | 57752 | 59055 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.10 | 99.46 | WP_000022832 |
| GEEKBGBJ_29 | 123 | 1133 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 86.54 | 99.41 | WP_002986042 |
| GEEKBGBJ_58 | 81787 | 83070 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.73 | 99.77 | WP_000107753 |
| GEEKBGBJ_3 | 51521 | 52567 | rfbB | 0.0 | Capsule | Immune modulation | 80.61 | 100.00 | WP_009659423 |
| GEEKBGBJ_1 | 60627 | 61213 | SPD_RS01775 | 1.03e-142 | Capsule | Immune modulation | 82.48 | 96.70 | 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 |
|---|---|---|---|---|---|---|---|---|
| GEEKBGBJ_36 | 18101 | 19084 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 94.82 | 100.00 | AAK75326 |
| GEEKBGBJ_5 | 13784 | 12711 | MntE | 0.0 | manganese homeostasis | 94.41 | 99.72 | ABF32167 |
| GEEKBGBJ_10 | 13378 | 14346 | spr0084 | 0.0 | pathogenitcity related | 93.19 | 98.48 | AAK98888 |
| GEEKBGBJ_7 | 40795 | 43098 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 92.97 | 99.22 | AAK74619 |
| GEEKBGBJ_36 | 97490 | 98971 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 92.31 | 100.00 | ABJ54480 |
| GEEKBGBJ_18 | 11392 | 9146 | metE | 0.0 | methionine biosynthesis enzymes | 91.86 | 100.00 | AAK74738 |
| GEEKBGBJ_9 | 37517 | 38515 | recA | 0.0 | DNA recombination and repair | 91.29 | 85.82 | AAL00560 |
| GEEKBGBJ_9 | 273 | 1244 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 90.12 | 100.00 | ABF36968 |
| GEEKBGBJ_4 | 30265 | 29114 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.32 | 99.74 | AAL00050 |
| GEEKBGBJ_4 | 2625 | 637 | uvrB | 0.0 | excinuclease ABC, B subunit | 88.84 | 100.00 | AE014259_2 |
| GEEKBGBJ_36 | 1902 | 172 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 88.04 | 100.00 | AAK34199 |
| GEEKBGBJ_11 | 10722 | 9244 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.42 | 100.00 | ADE32434 |
| GEEKBGBJ_2 | 57752 | 59053 | Eno | 0.0 | enolase | 86.21 | 99.77 | ABP90468 |
| GEEKBGBJ_19 | 19755 | 17863 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 86.05 | 98.90 | ABP91129 |
| GEEKBGBJ_18 | 6221 | 7930 | PGM | 0.0 | phosphoglucomutase | 83.71 | 99.65 | ACH87041 |
| GEEKBGBJ_20 | 2086 | 1076 | pdh | 0.0 | pyruvate dehydrogenase | 83.09 | 99.70 | ABP91006 |
| GEEKBGBJ_1 | 131073 | 132434 | mnmE | 0.0 | central tRNA-modifying GTPase | 81.80 | 99.56 | ABP90420 |
| GEEKBGBJ_13 | 4525 | 6417 | PepO | 0.0 | endopeptidase | 80.03 | 100.00 | ABF32980 |
| GEEKBGBJ_2 | 43317 | 44207 | bglB | 6.30e-180 | putative phospho--glucosidase | 88.89 | 99.66 | AAK33487 |
| GEEKBGBJ_6 | 45882 | 46820 | SP_0676 | 7.26e-169 | transcription facot | 81.15 | 97.20 | AAK74821 |
| GEEKBGBJ_18 | 8954 | 8097 | metF | 1.28e-167 | methionine biosynthesis enzymes | 86.71 | 99.31 | AAK74739 |
| GEEKBGBJ_1 | 8388 | 9092 | covR | 4.06e-132 | responder protein | 85.53 | 100.00 | AAK71319 |
| GEEKBGBJ_36 | 65318 | 64647 | rr01 | 1.35e-124 | response regulator | 83.48 | 99.56 | CAB54566 |
| GEEKBGBJ_1 | 8388 | 9092 | walR | 1.71e-122 | DNA-binding response regulator | 82.13 | 100.00 | ANC99504 |
| GEEKBGBJ_18 | 2267 | 1599 | CiaR | 2.92e-119 | two-component response regulator | 84.31 | 99.55 | AAK74935 |
| GEEKBGBJ_47 | 66036 | 66722 | CovR | 5.58e-119 | serves to repress GAS virulence factor-encoding genes | 80.79 | 100.00 | ACE75886 |
| GEEKBGBJ_18 | 2267 | 1596 | ciaR | 2.87e-117 | two component system response regulator | 82.14 | 99.12 | AIK75708 |
| GEEKBGBJ_9 | 38791 | 39165 | SpxA2 | 2.45e-71 | transcriptional regulator | 91.20 | 94.70 | ERL21461 |
| GEEKBGBJ_1 | 119712 | 119311 | SpxA1 | 3.49e-67 | transcriptional regulator | 80.60 | 100.00 | ERL19273 |
| GEEKBGBJ_47 | 88415 | 88702 | spr0479 | 7.88e-49 | essential gene | 86.46 | 98.97 | AAK99283 |
| GEEKBGBJ_57 | 5725 | 5471 | spr1327 | 9.96e-45 | essential gene | 94.12 | 100.00 | AAL00131 |
| GEEKBGBJ_16 | 14922 | 15185 | spr0175 | 1.38e-42 | pathogenitcity related | 84.09 | 100.00 | AAK98979 |
| GEEKBGBJ_16 | 15749 | 16015 | spr0177 | 2.44e-34 | essential gene | 84.27 | 88.12 | AAK98981 |
| GEEKBGBJ_58 | 81629 | 81129 | RopE (M5005_Spy_1611) | 2.34e-76 | probable DNA-directed RNA polymerase subunit delta | 81.44 | 87.43 | AAK34603 |
| GEEKBGBJ_7 | 40795 | 43092 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 82.94 | 98.08 | MYN69560 |
| GEEKBGBJ_13 | 18994 | 20013 | 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 |
|---|---|---|---|
| GEEKBGBJ_1 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_2 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_3 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_4 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_5 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_6 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_7 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_8 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_9 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_10 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_11 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_12 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_13 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_14 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_15 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_16 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_17 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_18 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_19 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_20 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_21 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_22 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_23 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_24 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_25 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_26 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_27 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_28 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_29 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_30 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_31 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_32 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_33 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_34 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_35 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_36 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_37 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_38 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_39 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_40 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_41 | 1.0 | 0.0 | 1.0 |
| GEEKBGBJ_42 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_43 | 1.0 | 0.0 | 1.0 |
| GEEKBGBJ_44 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_45 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_47 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_49 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_50 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_52 | 1.0 | 0.0 | 1.0 |
| GEEKBGBJ_57 | 0.0 | 1.0 | 0.0 |
| GEEKBGBJ_58 | 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)