Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 20 | 35 | 40.31 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| IMFCPDME_11 | 52215 | 53066 | rfbD | 0.0 | Capsule | Immune modulation | 95.31 | 100.00 | WP_014621820 |
| IMFCPDME_4 | 35705 | 36436 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 94.40 | 100.00 | WP_011227248 |
| IMFCPDME_4 | 35705 | 36436 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 93.72 | 100.00 | WP_011226048 |
| IMFCPDME_4 | 35705 | 36436 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 93.44 | 100.00 | WP_011681176 |
| IMFCPDME_11 | 45131 | 46887 | STU_RS16230 | 0.0 | Capsule | Immune modulation | 93.17 | 98.43 | WP_011226325 |
| IMFCPDME_11 | 49937 | 50893 | STU_RS16250 | 0.0 | Capsule | Immune modulation | 92.48 | 100.00 | WP_011226328 |
| IMFCPDME_11 | 49144 | 49953 | STU_RS16245 | 0.0 | Capsule | Immune modulation | 92.36 | 99.88 | WP_002948020 |
| IMFCPDME_11 | 47939 | 49144 | STU_RS16240 | 0.0 | Capsule | Immune modulation | 92.12 | 100.00 | WP_011226326 |
| IMFCPDME_11 | 50890 | 52038 | STU_RS16255 | 0.0 | Capsule | Immune modulation | 91.56 | 99.91 | WP_041828290 |
| IMFCPDME_4 | 34244 | 35704 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 91.33 | 99.86 | WP_011681177 |
| IMFCPDME_11 | 46884 | 47918 | STU_RS16235 | 0.0 | Capsule | Immune modulation | 91.10 | 99.15 | WP_002948022 |
| IMFCPDME_3 | 257773 | 258366 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 91.08 | 100.00 | WP_011226149 |
| IMFCPDME_6 | 86366 | 88024 | fbp54 | 0.0 | FBPs | Adherence | 91.02 | 99.94 | WP_011227179 |
| IMFCPDME_3 | 257773 | 258366 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 90.91 | 100.00 | WP_011226149 |
| IMFCPDME_3 | 257773 | 258366 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 90.91 | 100.00 | WP_011226149 |
| IMFCPDME_4 | 34244 | 35704 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 90.72 | 100.00 | WP_011226049 |
| IMFCPDME_4 | 34244 | 35704 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 90.03 | 100.00 | WP_041827043 |
| IMFCPDME_11 | 104995 | 105900 | cbpD | 0.0 | Autolysin | Exoenzyme | 89.96 | 93.50 | WP_082302295 |
| IMFCPDME_4 | 36445 | 37137 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 89.90 | 100.00 | WP_011226047 |
| IMFCPDME_4 | 36445 | 37137 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 89.61 | 100.00 | WP_011227247 |
| IMFCPDME_4 | 36445 | 37137 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 89.47 | 100.00 | WP_011681175 |
| IMFCPDME_3 | 97800 | 99103 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.17 | 99.54 | WP_000022832 |
| IMFCPDME_16 | 57900 | 58913 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 85.67 | 99.90 | WP_002986042 |
| IMFCPDME_7 | 81646 | 82407 | srtA | 0.0 | Sortase A | Exoenzyme | 84.40 | 99.87 | - |
| IMFCPDME_3 | 258636 | 259682 | rfbB | 0.0 | Capsule | Immune modulation | 83.49 | 99.90 | WP_002263087 |
| IMFCPDME_34 | 1900 | 3183 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.84 | 99.61 | WP_000107753 |
| IMFCPDME_3 | 256904 | 257773 | rfbA | 0.0 | Capsule | Immune modulation | 80.28 | 99.77 | WP_002904719 |
| IMFCPDME_4 | 37147 | 37817 | STU_RS14635 | 6.11e-150 | Capsule | Immune modulation | 81.13 | 90.28 | WP_011226046 |
| IMFCPDME_4 | 37147 | 37817 | STER_RS05305 | 2.84e-148 | Capsule | Immune modulation | 80.98 | 90.28 | WP_011681174 |
| IMFCPDME_4 | 37147 | 37817 | STR_RS05250 | 2.88e-138 | Capsule | Immune modulation | 80.09 | 89.20 | WP_011227246 |
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 |
|---|---|---|---|---|---|---|---|---|
| IMFCPDME_7 | 85096 | 86079 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 96.95 | 100.00 | AAK75326 |
| IMFCPDME_7 | 73508 | 72435 | MntE | 0.0 | manganese homeostasis | 96.09 | 99.72 | ABF32167 |
| IMFCPDME_15 | 88501 | 90807 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 94.41 | 99.22 | AAK74619 |
| IMFCPDME_9 | 7511 | 8992 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 93.32 | 100.00 | ABJ54480 |
| IMFCPDME_3 | 7515 | 8483 | spr0084 | 0.0 | pathogenitcity related | 93.19 | 98.48 | AAK98888 |
| IMFCPDME_7 | 54449 | 52203 | metE | 0.0 | methionine biosynthesis enzymes | 92.66 | 100.00 | AAK74738 |
| IMFCPDME_1 | 4661 | 5632 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 91.67 | 100.00 | ABF36968 |
| IMFCPDME_8 | 7164 | 691 | PrtA | 0.0 | serine protease | 91.39 | 100.61 | ABJ55268 |
| IMFCPDME_3 | 231529 | 233259 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 89.95 | 100.00 | AAK34199 |
| IMFCPDME_11 | 65242 | 63254 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.59 | 100.00 | AE014259_2 |
| IMFCPDME_14 | 3952 | 2801 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.32 | 99.74 | AAL00050 |
| IMFCPDME_19 | 9872 | 8394 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.83 | 100.00 | ADE32434 |
| IMFCPDME_3 | 97800 | 99101 | Eno | 0.0 | enolase | 86.44 | 99.77 | ABP90468 |
| IMFCPDME_18 | 54539 | 52647 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.74 | 98.90 | ABP91129 |
| IMFCPDME_12 | 12598 | 13689 | recA | 0.0 | DNA recombination and repair | 84.91 | 95.36 | AAL00560 |
| IMFCPDME_7 | 49285 | 50994 | PGM | 0.0 | phosphoglucomutase | 84.76 | 99.65 | ACH87041 |
| IMFCPDME_6 | 174327 | 175337 | pdh | 0.0 | pyruvate dehydrogenase | 83.38 | 99.70 | ABP91006 |
| IMFCPDME_6 | 72440 | 73801 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.89 | 99.56 | ABP90420 |
| IMFCPDME_3 | 83386 | 84276 | bglB | 4.50e-178 | putative phospho--glucosidase | 87.88 | 99.66 | AAK33487 |
| IMFCPDME_7 | 9315 | 10265 | SP_0676 | 1.88e-170 | transcription facot | 81.39 | 98.45 | AAK74821 |
| IMFCPDME_7 | 52013 | 51156 | metF | 5.52e-169 | methionine biosynthesis enzymes | 87.06 | 99.31 | AAK74739 |
| IMFCPDME_3 | 194667 | 193810 | mtsA | 1.14e-151 | substrate-binding lipoprotein of manganese transporter | 80.14 | 92.86 | AIK76191 |
| IMFCPDME_4 | 1918 | 2622 | covR | 2.12e-127 | responder protein | 85.53 | 100.00 | AAK71319 |
| IMFCPDME_8 | 25285 | 24614 | rr01 | 9.88e-127 | response regulator | 84.38 | 99.56 | CAB54566 |
| IMFCPDME_7 | 44619 | 43948 | ciaR | 1.80e-125 | two component system response regulator | 86.16 | 99.12 | AIK75708 |
| IMFCPDME_7 | 44619 | 43951 | CiaR | 4.16e-125 | two-component response regulator | 87.44 | 99.55 | AAK74935 |
| IMFCPDME_4 | 1918 | 2622 | walR | 4.83e-121 | DNA-binding response regulator | 82.13 | 100.00 | ANC99504 |
| IMFCPDME_56 | 23587 | 24273 | CovR | 6.47e-121 | serves to repress GAS virulence factor-encoding genes | 82.10 | 100.00 | ACE75886 |
| IMFCPDME_12 | 13863 | 14258 | SpxA2 | 1.42e-76 | transcriptional regulator | 91.67 | 100.00 | ERL21461 |
| IMFCPDME_6 | 60982 | 60581 | SpxA1 | 1.60e-69 | transcriptional regulator | 82.09 | 100.00 | ERL19273 |
| IMFCPDME_23 | 52490 | 52903 | GrpE | 1.08e-67 | protein grpE | 81.16 | 80.59 | ABP89267 |
| IMFCPDME_56 | 46791 | 47078 | spr0479 | 2.05e-48 | essential gene | 85.42 | 98.97 | AAK99283 |
| IMFCPDME_2 | 16618 | 16872 | spr1327 | 1.35e-46 | essential gene | 94.12 | 100.00 | AAL00131 |
| IMFCPDME_18 | 13920 | 14183 | spr0175 | 3.11e-43 | pathogenitcity related | 85.23 | 100.00 | AAK98979 |
| IMFCPDME_18 | 14745 | 15011 | spr0177 | 6.91e-42 | essential gene | 83.15 | 88.12 | AAK98981 |
| IMFCPDME_34 | 3350 | 3841 | RopE (M5005_Spy_1611) | 4.52e-73 | probable DNA-directed RNA polymerase subunit delta | 83.54 | 85.86 | AAK34603 |
| IMFCPDME_15 | 88501 | 90801 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 83.22 | 98.08 | MYN69560 |
| IMFCPDME_6 | 210999 | 209980 | ilvC (SPD_0406) | 0.0 | ketol-acid reductoisomerase (NADP(+)) | 85.88 | 100.00 | ABJ55451 |
| IMFCPDME_6 | 101009 | 100470 | pnuC | 3.30e-94 | NAD salvage pathway importer | 83.89 | 66.91 | AAK75931 |
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 |
|---|---|---|---|
| IMFCPDME_1 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_2 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_3 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_4 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_5 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_6 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_7 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_8 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_9 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_10 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_11 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_12 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_13 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_14 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_15 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_16 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_17 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_18 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_19 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_20 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_21 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_23 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_25 | 1.0 | 0.0 | 1.0 |
| IMFCPDME_26 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_27 | 1.0 | 0.0 | 1.0 |
| IMFCPDME_34 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_45 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_56 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_67 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_77 | 0.0 | 1.0 | 0.0 |
| IMFCPDME_78 | 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)