Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 20 | 33 | 38.64 |
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. |
|---|---|---|---|---|---|---|---|
| CMFOOCNG_7 | 138806 | 140023 | mef(A) | Erythromycin, Azithromycin | 100.00 | 100.00 | U83667 |
| CMFOOCNG_7 | 140143 | 141606 | msr(D) | Erythromycin, Azithromycin, Telithromycin, Quinupristin, Pristinamycin IA, Virginiamycin S | 99.93 | 100.00 | AF274302 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| CMFOOCNG_7 | 138806 | 140020 | mef(A) | macrolide efflux MFS transporter Mef(A) | EXACTX | 100.00 | 100.00 | WP_000417519.1 |
| CMFOOCNG_7 | 140143 | 141603 | msr(D) | ABC-F type ribosomal protection protein Msr(D) | BLASTX | 99.79 | 100.00 | WP_000420313.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| CMFOOCNG_9 | 126436 | 127404 | STER_RS07090 | 0.0 | Capsule | Immune modulation | 98.86 | 100.00 | WP_011681443 |
| CMFOOCNG_9 | 124215 | 125468 | STER_RS07100 | 0.0 | Capsule | Immune modulation | 96.81 | 99.52 | WP_011681445 |
| CMFOOCNG_7 | 61925 | 63385 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 96.72 | 100.00 | WP_011681177 |
| CMFOOCNG_7 | 61925 | 63385 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 96.37 | 100.21 | WP_011226049 |
| CMFOOCNG_9 | 127406 | 128121 | STER_RS07085 | 0.0 | Capsule | Immune modulation | 95.95 | 99.86 | WP_011681442 |
| CMFOOCNG_7 | 61925 | 63385 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 95.69 | 100.21 | WP_041827043 |
| CMFOOCNG_9 | 123245 | 124096 | rfbD | 0.0 | Capsule | Immune modulation | 94.72 | 100.00 | WP_014621820 |
| CMFOOCNG_7 | 65625 | 66992 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 94.59 | 100.00 | WP_011226045 |
| CMFOOCNG_7 | 65625 | 66990 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 94.29 | 99.85 | WP_011681173 |
| CMFOOCNG_9 | 128467 | 129237 | STER_RS07075 | 0.0 | Capsule | Immune modulation | 94.16 | 99.23 | WP_011681440 |
| CMFOOCNG_7 | 64828 | 65568 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 93.93 | 100.00 | WP_011681174 |
| CMFOOCNG_7 | 63386 | 64117 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 93.85 | 100.00 | WP_011681176 |
| CMFOOCNG_7 | 63386 | 64117 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 93.72 | 100.00 | WP_011226048 |
| CMFOOCNG_7 | 64828 | 65568 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 93.25 | 100.00 | WP_011226046 |
| CMFOOCNG_7 | 63386 | 64117 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 93.03 | 100.00 | WP_011227248 |
| CMFOOCNG_7 | 64828 | 65563 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 92.66 | 98.13 | WP_011227246 |
| CMFOOCNG_6 | 75362 | 75955 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 91.58 | 100.00 | WP_011226149 |
| CMFOOCNG_6 | 75362 | 75955 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 91.41 | 100.00 | WP_011226149 |
| CMFOOCNG_6 | 75362 | 75955 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 91.41 | 100.00 | WP_011226149 |
| CMFOOCNG_6 | 75955 | 76824 | rfbA | 0.0 | Capsule | Immune modulation | 90.92 | 100.00 | WP_011681286 |
| CMFOOCNG_14 | 22307 | 23146 | cbpD | 0.0 | Autolysin | Exoenzyme | 90.62 | 99.88 | WP_011226733 |
| CMFOOCNG_7 | 186153 | 187811 | fbp54 | 0.0 | FBPs | Adherence | 90.24 | 99.94 | WP_011227179 |
| CMFOOCNG_11 | 191309 | 192319 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 88.55 | 99.80 | WP_002986042 |
| CMFOOCNG_6 | 237693 | 238996 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.24 | 99.54 | WP_000022832 |
| CMFOOCNG_7 | 64126 | 64818 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 87.46 | 99.86 | WP_011227247 |
| CMFOOCNG_7 | 64126 | 64818 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 87.46 | 99.86 | WP_011226047 |
| CMFOOCNG_7 | 64126 | 64818 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 87.18 | 99.86 | WP_011681175 |
| CMFOOCNG_1 | 42413 | 43174 | srtA | 0.0 | Sortase A | Exoenzyme | 84.53 | 99.87 | - |
| CMFOOCNG_6 | 74045 | 75091 | rfbB | 0.0 | Capsule | Immune modulation | 84.06 | 99.90 | WP_002263087 |
| CMFOOCNG_8 | 214084 | 215367 | tig/ropA | 0.0 | Trigger factor | Stress survival | 81.01 | 99.53 | WP_000107753 |
| CMFOOCNG_7 | 76066 | 76649 | SPD_RS01775 | 1.94e-152 | Capsule | Immune modulation | 83.59 | 96.20 | 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 |
|---|---|---|---|---|---|---|---|---|
| CMFOOCNG_7 | 319865 | 318792 | MntE | 0.0 | manganese homeostasis | 96.09 | 99.72 | ABF32167 |
| CMFOOCNG_1 | 39725 | 38751 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 96.00 | 99.09 | AAK75326 |
| CMFOOCNG_11 | 63909 | 66215 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 94.41 | 99.22 | AAK74619 |
| CMFOOCNG_12 | 111682 | 113163 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 93.12 | 100.00 | ABJ54480 |
| CMFOOCNG_6 | 329837 | 328869 | spr0084 | 0.0 | pathogenitcity related | 92.88 | 98.48 | AAK98888 |
| CMFOOCNG_7 | 300806 | 298560 | metE | 0.0 | methionine biosynthesis enzymes | 92.52 | 100.00 | AAK74738 |
| CMFOOCNG_14 | 3564 | 4535 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 91.67 | 100.00 | ABF36968 |
| CMFOOCNG_6 | 102209 | 100479 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 89.95 | 100.00 | AAK34199 |
| CMFOOCNG_9 | 109807 | 111795 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.59 | 100.00 | AE014259_2 |
| CMFOOCNG_9 | 81203 | 82354 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.58 | 99.74 | AAL00050 |
| CMFOOCNG_10 | 189210 | 187732 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.63 | 100.00 | ADE32434 |
| CMFOOCNG_6 | 238996 | 237695 | Eno | 0.0 | enolase | 86.44 | 99.77 | ABP90468 |
| CMFOOCNG_10 | 173890 | 171998 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.42 | 98.90 | ABP91129 |
| CMFOOCNG_7 | 295641 | 297350 | PGM | 0.0 | phosphoglucomutase | 84.94 | 99.65 | ACH87041 |
| CMFOOCNG_14 | 44516 | 45607 | recA | 0.0 | DNA recombination and repair | 84.64 | 95.36 | AAL00560 |
| CMFOOCNG_10 | 28786 | 29796 | pdh | 0.0 | pyruvate dehydrogenase | 83.09 | 99.70 | ABP91006 |
| CMFOOCNG_7 | 170601 | 171962 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.24 | 99.56 | ABP90420 |
| CMFOOCNG_6 | 253402 | 252512 | bglB | 3.07e-177 | putative phospho--glucosidase | 87.54 | 99.66 | AAK33487 |
| CMFOOCNG_7 | 256342 | 257304 | SP_0676 | 1.57e-169 | transcription facot | 80.69 | 99.69 | AAK74821 |
| CMFOOCNG_7 | 298373 | 297516 | metF | 2.61e-168 | methionine biosynthesis enzymes | 87.76 | 99.31 | AAK74739 |
| CMFOOCNG_12 | 45317 | 44646 | rr01 | 3.36e-127 | response regulator | 84.82 | 99.56 | CAB54566 |
| CMFOOCNG_7 | 14737 | 15441 | covR | 5.24e-126 | responder protein | 85.11 | 100.00 | AAK71319 |
| CMFOOCNG_7 | 291673 | 291002 | ciaR | 2.22e-125 | two component system response regulator | 86.16 | 99.12 | AIK75708 |
| CMFOOCNG_7 | 291673 | 291011 | CiaR | 3.16e-124 | two-component response regulator | 87.78 | 98.66 | AAK74935 |
| CMFOOCNG_8 | 55419 | 54733 | CovR | 4.76e-120 | serves to repress GAS virulence factor-encoding genes | 81.66 | 100.00 | ACE75886 |
| CMFOOCNG_7 | 14737 | 15441 | walR | 9.62e-120 | DNA-binding response regulator | 81.70 | 100.00 | ANC99504 |
| CMFOOCNG_14 | 45780 | 46175 | SpxA2 | 4.57e-76 | transcriptional regulator | 91.67 | 100.00 | ERL21461 |
| CMFOOCNG_7 | 159137 | 158736 | SpxA1 | 6.28e-70 | transcriptional regulator | 82.84 | 100.00 | ERL19273 |
| CMFOOCNG_13 | 5999 | 5595 | GrpE | 9.90e-68 | protein grpE | 82.96 | 78.82 | ABP89267 |
| CMFOOCNG_8 | 32209 | 31922 | spr0479 | 5.77e-48 | essential gene | 85.42 | 98.97 | AAK99283 |
| CMFOOCNG_6 | 387099 | 386845 | spr1327 | 2.44e-44 | essential gene | 92.94 | 100.00 | AAL00131 |
| CMFOOCNG_10 | 143016 | 143279 | spr0175 | 1.11e-42 | pathogenitcity related | 85.23 | 100.00 | AAK98979 |
| CMFOOCNG_10 | 143842 | 144108 | spr0177 | 1.55e-41 | essential gene | 83.15 | 88.12 | AAK98981 |
| CMFOOCNG_8 | 213917 | 213426 | RopE (M5005_Spy_1611) | 1.05e-72 | probable DNA-directed RNA polymerase subunit delta | 82.93 | 85.86 | AAK34603 |
| CMFOOCNG_11 | 63909 | 66209 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 83.22 | 98.08 | MYN69560 |
| CMFOOCNG_10 | 65200 | 64181 | 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. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| CMFOOCNG_1 | 0.0 | 1.0 | 0.0 |
| CMFOOCNG_2 | 0.0 | 1.0 | 0.0 |
| CMFOOCNG_3 | 0.0 | 1.0 | 0.0 |
| CMFOOCNG_4 | 0.0 | 1.0 | 0.0 |
| CMFOOCNG_5 | 0.0 | 1.0 | 0.0 |
| CMFOOCNG_6 | 0.0 | 1.0 | 0.0 |
| CMFOOCNG_7 | 0.0 | 1.0 | 0.0 |
| CMFOOCNG_8 | 0.0 | 1.0 | 0.0 |
| CMFOOCNG_9 | 0.0 | 1.0 | 0.0 |
| CMFOOCNG_10 | 0.0 | 1.0 | 0.0 |
| CMFOOCNG_11 | 0.0 | 1.0 | 0.0 |
| CMFOOCNG_12 | 0.0 | 1.0 | 0.0 |
| CMFOOCNG_13 | 0.0 | 1.0 | 0.0 |
| CMFOOCNG_14 | 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)