Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 1 | 23 | 34 | 41.06 |
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. |
|---|---|---|---|---|---|---|---|---|
| OOOLKEME_24 | 72209 | 74128 | tet(M) | ARO:3000186 | tet(M) | 99.37 | 100.00 | AB039845.1 |
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. |
|---|---|---|---|---|---|---|---|
| OOOLKEME_24 | 72209 | 74128 | tet(M) | Doxycycline, Tetracycline, Minocycline | 99.90 | 100.00 | X75073 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| OOOLKEME_24 | 72212 | 74128 | tet(M) | tetracycline resistance ribosomal protection protein Tet(M) | EXACTX | 100.00 | 100.00 | WP_000691727.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| OOOLKEME_18 | 160298 | 161663 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 95.24 | 99.85 | WP_011681173 |
| OOOLKEME_1 | 227926 | 228777 | rfbD | 0.0 | Capsule | Immune modulation | 94.95 | 100.00 | WP_014621820 |
| OOOLKEME_18 | 160296 | 161663 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 94.30 | 100.00 | WP_011226045 |
| OOOLKEME_18 | 163903 | 165363 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 94.05 | 100.14 | WP_011226049 |
| OOOLKEME_18 | 161720 | 162460 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 93.93 | 100.00 | WP_011681174 |
| OOOLKEME_18 | 163903 | 165363 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 93.91 | 100.00 | WP_011681177 |
| OOOLKEME_1 | 229878 | 231149 | STU_RS16265 | 0.0 | Capsule | Immune modulation | 93.63 | 99.76 | WP_011226331 |
| OOOLKEME_18 | 161720 | 162460 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 93.25 | 100.00 | WP_011226046 |
| OOOLKEME_18 | 163903 | 165363 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 93.16 | 100.14 | WP_041827043 |
| OOOLKEME_1 | 231152 | 232110 | STU_RS16260 | 0.0 | Capsule | Immune modulation | 92.81 | 94.86 | WP_011226330 |
| OOOLKEME_1 | 238974 | 240758 | STU_RS16230 | 0.0 | Capsule | Immune modulation | 92.77 | 100.00 | WP_011226325 |
| OOOLKEME_18 | 161725 | 162460 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 92.66 | 98.13 | WP_011227246 |
| OOOLKEME_18 | 163171 | 163902 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 92.62 | 100.00 | WP_011226048 |
| OOOLKEME_18 | 163171 | 163902 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 92.49 | 100.00 | WP_011681176 |
| OOOLKEME_1 | 234969 | 235925 | STU_RS16250 | 0.0 | Capsule | Immune modulation | 92.48 | 100.00 | WP_011226328 |
| OOOLKEME_1 | 235909 | 236718 | STU_RS16245 | 0.0 | Capsule | Immune modulation | 92.36 | 99.88 | WP_002948020 |
| OOOLKEME_1 | 236718 | 237923 | STU_RS16240 | 0.0 | Capsule | Immune modulation | 91.87 | 100.00 | WP_011226326 |
| OOOLKEME_18 | 163171 | 163902 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 91.67 | 100.00 | WP_011227248 |
| OOOLKEME_1 | 237943 | 238977 | STU_RS16235 | 0.0 | Capsule | Immune modulation | 91.48 | 99.15 | WP_002948022 |
| OOOLKEME_1 | 233824 | 234972 | STU_RS16255 | 0.0 | Capsule | Immune modulation | 91.39 | 99.91 | WP_041828290 |
| OOOLKEME_26 | 120081 | 120950 | rfbA | 0.0 | Capsule | Immune modulation | 91.26 | 100.00 | WP_011681286 |
| OOOLKEME_26 | 119488 | 120081 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 90.91 | 100.00 | WP_011226149 |
| OOOLKEME_26 | 119488 | 120081 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 90.74 | 100.00 | WP_011226149 |
| OOOLKEME_26 | 119488 | 120081 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 90.74 | 100.00 | WP_011226149 |
| OOOLKEME_18 | 40849 | 42507 | fbp54 | 0.0 | FBPs | Adherence | 90.48 | 99.94 | WP_011227179 |
| OOOLKEME_23 | 188575 | 189585 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 88.65 | 99.80 | WP_002986042 |
| OOOLKEME_22 | 167505 | 168808 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.24 | 99.54 | WP_000022832 |
| OOOLKEME_18 | 162470 | 163162 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 88.18 | 99.86 | WP_011227247 |
| OOOLKEME_18 | 162470 | 163162 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 88.18 | 99.86 | WP_011226047 |
| OOOLKEME_2 | 95161 | 96066 | cbpD | 0.0 | Autolysin | Exoenzyme | 87.86 | 93.50 | WP_082302295 |
| OOOLKEME_18 | 162470 | 163162 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 87.61 | 99.86 | WP_011681175 |
| OOOLKEME_23 | 100679 | 101440 | srtA | 0.0 | Sortase A | Exoenzyme | 84.53 | 99.87 | - |
| OOOLKEME_26 | 118241 | 119287 | rfbB | 0.0 | Capsule | Immune modulation | 80.99 | 100.00 | WP_009659423 |
| OOOLKEME_9 | 210105 | 211388 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.84 | 99.61 | WP_000107753 |
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 |
|---|---|---|---|---|---|---|---|---|
| OOOLKEME_23 | 104129 | 105103 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 96.31 | 99.09 | AAK75326 |
| OOOLKEME_23 | 92541 | 91468 | MntE | 0.0 | manganese homeostasis | 96.09 | 99.72 | ABF32167 |
| OOOLKEME_1 | 57702 | 55396 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 94.41 | 99.22 | AAK74619 |
| OOOLKEME_25 | 19044 | 17563 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 93.32 | 100.00 | ABJ54480 |
| OOOLKEME_3 | 59005 | 58037 | spr0084 | 0.0 | pathogenitcity related | 92.57 | 98.48 | AAK98888 |
| OOOLKEME_23 | 73483 | 71237 | metE | 0.0 | methionine biosynthesis enzymes | 92.12 | 100.00 | AAK74738 |
| OOOLKEME_5 | 3464 | 4435 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 91.67 | 100.00 | ABF36968 |
| OOOLKEME_23 | 160529 | 153966 | PrtA | 0.0 | serine protease | 90.05 | 101.96 | ABJ55268 |
| OOOLKEME_22 | 1741 | 11 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 89.95 | 100.00 | AAK34199 |
| OOOLKEME_1 | 187111 | 188262 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.58 | 99.74 | AAL00050 |
| OOOLKEME_1 | 215463 | 217451 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.44 | 100.00 | AE014259_2 |
| OOOLKEME_21 | 184752 | 183274 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.83 | 100.00 | ADE32434 |
| OOOLKEME_22 | 168808 | 167507 | Eno | 0.0 | enolase | 86.44 | 99.77 | ABP90468 |
| OOOLKEME_21 | 169386 | 167494 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.58 | 98.90 | ABP91129 |
| OOOLKEME_23 | 68318 | 70027 | PGM | 0.0 | phosphoglucomutase | 85.11 | 99.65 | ACH87041 |
| OOOLKEME_5 | 39343 | 40434 | recA | 0.0 | DNA recombination and repair | 84.64 | 95.36 | AAL00560 |
| OOOLKEME_21 | 28666 | 29676 | pdh | 0.0 | pyruvate dehydrogenase | 83.38 | 99.70 | ABP91006 |
| OOOLKEME_18 | 71044 | 69683 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.67 | 99.56 | ABP90420 |
| OOOLKEME_22 | 183224 | 182334 | bglB | 1.17e-177 | putative phospho--glucosidase | 87.54 | 99.66 | AAK33487 |
| OOOLKEME_23 | 29050 | 30000 | SP_0676 | 3.24e-170 | transcription facot | 81.39 | 98.45 | AAK74821 |
| OOOLKEME_23 | 71050 | 70193 | metF | 5.13e-169 | methionine biosynthesis enzymes | 87.76 | 99.31 | AAK74739 |
| OOOLKEME_18 | 211113 | 210409 | covR | 9.48e-127 | responder protein | 85.53 | 100.00 | AAK71319 |
| OOOLKEME_25 | 81642 | 82313 | rr01 | 9.82e-127 | response regulator | 84.38 | 99.56 | CAB54566 |
| OOOLKEME_23 | 64350 | 63679 | ciaR | 9.35e-125 | two component system response regulator | 85.71 | 99.12 | AIK75708 |
| OOOLKEME_23 | 64350 | 63682 | CiaR | 1.76e-124 | two-component response regulator | 87.00 | 99.55 | AAK74935 |
| OOOLKEME_18 | 211113 | 210409 | walR | 2.15e-120 | DNA-binding response regulator | 82.13 | 100.00 | ANC99504 |
| OOOLKEME_9 | 53705 | 53019 | CovR | 4.66e-120 | serves to repress GAS virulence factor-encoding genes | 81.66 | 100.00 | ACE75886 |
| OOOLKEME_5 | 40608 | 41003 | SpxA2 | 4.04e-76 | transcriptional regulator | 91.67 | 100.00 | ERL21461 |
| OOOLKEME_18 | 82515 | 82916 | SpxA1 | 5.45e-70 | transcriptional regulator | 82.84 | 100.00 | ERL19273 |
| OOOLKEME_4 | 6729 | 6316 | GrpE | 4.20e-68 | protein grpE | 81.88 | 80.59 | ABP89267 |
| OOOLKEME_9 | 30493 | 30206 | spr0479 | 5.32e-48 | essential gene | 85.42 | 98.97 | AAK99283 |
| OOOLKEME_3 | 92759 | 92505 | spr1327 | 5.24e-45 | essential gene | 92.94 | 100.00 | AAL00131 |
| OOOLKEME_21 | 120305 | 120568 | spr0175 | 1.09e-42 | pathogenitcity related | 85.23 | 100.00 | AAK98979 |
| OOOLKEME_21 | 121129 | 121395 | spr0177 | 2.42e-41 | essential gene | 83.15 | 88.12 | AAK98981 |
| OOOLKEME_9 | 209938 | 209447 | RopE (M5005_Spy_1611) | 1.03e-72 | probable DNA-directed RNA polymerase subunit delta | 82.93 | 85.86 | AAK34603 |
| OOOLKEME_1 | 57702 | 55402 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 83.09 | 98.08 | MYN69560 |
| OOOLKEME_21 | 65104 | 64085 | ilvC (SPD_0406) | 0.0 | ketol-acid reductoisomerase (NADP(+)) | 97.35 | 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. |
|---|---|---|---|---|---|---|
| OOOLKEME_24 | 82402 | 83607 | repUS43 | 1206 / 1206 | 99.83 | CP003584 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| OOOLKEME_1 | 0.0 | 1.0 | 0.0 |
| OOOLKEME_2 | 0.0 | 1.0 | 0.0 |
| OOOLKEME_3 | 0.0 | 1.0 | 0.0 |
| OOOLKEME_4 | 0.0 | 1.0 | 0.0 |
| OOOLKEME_5 | 0.0 | 1.0 | 0.0 |
| OOOLKEME_6 | 0.0 | 1.0 | 0.0 |
| OOOLKEME_8 | 0.0 | 1.0 | 0.0 |
| OOOLKEME_9 | 0.0 | 1.0 | 0.0 |
| OOOLKEME_10 | 0.0 | 1.0 | 0.0 |
| OOOLKEME_18 | 0.0 | 1.0 | 0.0 |
| OOOLKEME_21 | 0.0 | 1.0 | 0.0 |
| OOOLKEME_22 | 0.0 | 1.0 | 0.0 |
| OOOLKEME_23 | 0.0 | 1.0 | 0.0 |
| OOOLKEME_24 | 0.0 | 1.0 | 0.0 |
| OOOLKEME_25 | 0.0 | 1.0 | 0.0 |
| OOOLKEME_26 | 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)