Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 20 | 33 | 38.59 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| NHIMFEAK_3 | 35604 | 36335 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 94.40 | 100.00 | WP_011227248 |
| NHIMFEAK_11 | 154249 | 155100 | rfbD | 0.0 | Capsule | Immune modulation | 94.25 | 100.00 | WP_014621820 |
| NHIMFEAK_3 | 35604 | 36335 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 93.72 | 100.00 | WP_011226048 |
| NHIMFEAK_3 | 35604 | 36335 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 93.44 | 100.00 | WP_011681176 |
| NHIMFEAK_11 | 157362 | 158171 | STU_RS16245 | 0.0 | Capsule | Immune modulation | 92.85 | 99.88 | WP_002948020 |
| NHIMFEAK_11 | 160428 | 162184 | STU_RS16230 | 0.0 | Capsule | Immune modulation | 92.60 | 98.43 | WP_011226325 |
| NHIMFEAK_11 | 158171 | 159376 | STU_RS16240 | 0.0 | Capsule | Immune modulation | 92.37 | 100.00 | WP_011226326 |
| NHIMFEAK_11 | 156422 | 157378 | STU_RS16250 | 0.0 | Capsule | Immune modulation | 91.85 | 100.00 | WP_011226328 |
| NHIMFEAK_11 | 155277 | 156425 | STU_RS16255 | 0.0 | Capsule | Immune modulation | 91.57 | 99.83 | WP_041828290 |
| NHIMFEAK_33 | 59976 | 61634 | fbp54 | 0.0 | FBPs | Adherence | 91.14 | 99.94 | WP_011227179 |
| NHIMFEAK_3 | 34143 | 35603 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 91.13 | 99.86 | WP_011681177 |
| NHIMFEAK_37 | 32312 | 32905 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 91.08 | 100.00 | WP_011226149 |
| NHIMFEAK_11 | 159397 | 160431 | STU_RS16235 | 0.0 | Capsule | Immune modulation | 91.00 | 99.15 | WP_002948022 |
| NHIMFEAK_37 | 32312 | 32905 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 90.91 | 100.00 | WP_011226149 |
| NHIMFEAK_37 | 32312 | 32905 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 90.91 | 100.00 | WP_011226149 |
| NHIMFEAK_3 | 34143 | 35603 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 90.51 | 100.00 | WP_011226049 |
| NHIMFEAK_3 | 36344 | 37036 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 89.90 | 100.00 | WP_011226047 |
| NHIMFEAK_3 | 34143 | 35603 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 89.83 | 100.00 | WP_041827043 |
| NHIMFEAK_3 | 36344 | 37036 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 89.61 | 100.00 | WP_011227247 |
| NHIMFEAK_3 | 36344 | 37036 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 89.47 | 100.00 | WP_011681175 |
| NHIMFEAK_41 | 40495 | 41798 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.47 | 99.54 | WP_000022832 |
| NHIMFEAK_11 | 77211 | 78050 | cbpD | 0.0 | Autolysin | Exoenzyme | 87.87 | 99.88 | WP_011226733 |
| NHIMFEAK_38 | 14381 | 15394 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 85.67 | 99.90 | WP_002986042 |
| NHIMFEAK_33 | 208954 | 209715 | srtA | 0.0 | Sortase A | Exoenzyme | 84.40 | 99.87 | - |
| NHIMFEAK_37 | 30996 | 32042 | rfbB | 0.0 | Capsule | Immune modulation | 83.49 | 99.90 | WP_002263087 |
| NHIMFEAK_22 | 219225 | 220508 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.84 | 99.61 | WP_000107753 |
| NHIMFEAK_37 | 32905 | 33774 | rfbA | 0.0 | Capsule | Immune modulation | 80.28 | 99.77 | WP_002904719 |
| NHIMFEAK_3 | 37046 | 37716 | STU_RS14635 | 6.33e-150 | Capsule | Immune modulation | 81.13 | 90.28 | WP_011226046 |
| NHIMFEAK_3 | 37046 | 37716 | STER_RS05305 | 2.95e-148 | Capsule | Immune modulation | 80.98 | 90.28 | WP_011681174 |
| NHIMFEAK_3 | 37046 | 37716 | STR_RS05250 | 2.99e-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 |
|---|---|---|---|---|---|---|---|---|
| NHIMFEAK_33 | 212404 | 213387 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 96.95 | 100.00 | AAK75326 |
| NHIMFEAK_33 | 200818 | 199745 | MntE | 0.0 | manganese homeostasis | 96.09 | 99.72 | ABF32167 |
| NHIMFEAK_38 | 147584 | 145278 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 94.28 | 99.22 | AAK74619 |
| NHIMFEAK_40 | 121224 | 122705 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 93.12 | 100.00 | ABJ54480 |
| NHIMFEAK_33 | 181757 | 179511 | metE | 0.0 | methionine biosynthesis enzymes | 92.66 | 100.00 | AAK74738 |
| NHIMFEAK_42 | 59865 | 60833 | spr0084 | 0.0 | pathogenitcity related | 92.57 | 98.48 | AAK98888 |
| NHIMFEAK_10 | 4392 | 5363 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 91.67 | 100.00 | ABF36968 |
| NHIMFEAK_37 | 59147 | 57417 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 90.12 | 100.00 | AAK34199 |
| NHIMFEAK_11 | 142073 | 144061 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.44 | 100.00 | AE014259_2 |
| NHIMFEAK_2 | 29775 | 30926 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.32 | 99.74 | AAL00050 |
| NHIMFEAK_12 | 29286 | 27808 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.63 | 100.00 | ADE32434 |
| NHIMFEAK_41 | 41798 | 40497 | Eno | 0.0 | enolase | 86.44 | 99.77 | ABP90468 |
| NHIMFEAK_12 | 13940 | 12048 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.58 | 98.90 | ABP91129 |
| NHIMFEAK_33 | 176589 | 178298 | PGM | 0.0 | phosphoglucomutase | 84.76 | 99.65 | ACH87041 |
| NHIMFEAK_10 | 38830 | 39921 | recA | 0.0 | DNA recombination and repair | 84.64 | 95.36 | AAL00560 |
| NHIMFEAK_1 | 19508 | 20518 | pdh | 0.0 | pyruvate dehydrogenase | 83.38 | 99.70 | ABP91006 |
| NHIMFEAK_33 | 46460 | 47821 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.67 | 99.56 | ABP90420 |
| NHIMFEAK_41 | 56206 | 55316 | bglB | 8.13e-178 | putative phospho--glucosidase | 87.20 | 99.66 | AAK33487 |
| NHIMFEAK_33 | 135778 | 136728 | SP_0676 | 3.25e-170 | transcription facot | 81.39 | 98.45 | AAK74821 |
| NHIMFEAK_33 | 179321 | 178464 | metF | 9.56e-169 | methionine biosynthesis enzymes | 87.06 | 99.31 | AAK74739 |
| NHIMFEAK_3 | 1845 | 2549 | covR | 2.20e-127 | responder protein | 85.53 | 100.00 | AAK71319 |
| NHIMFEAK_40 | 54677 | 54006 | rr01 | 3.49e-127 | response regulator | 84.82 | 99.56 | CAB54566 |
| NHIMFEAK_33 | 172619 | 171948 | ciaR | 2.12e-125 | two component system response regulator | 86.16 | 99.12 | AIK75708 |
| NHIMFEAK_33 | 172619 | 171951 | CiaR | 3.91e-125 | two-component response regulator | 87.44 | 99.55 | AAK74935 |
| NHIMFEAK_3 | 1845 | 2549 | walR | 5.01e-121 | DNA-binding response regulator | 82.13 | 100.00 | ANC99504 |
| NHIMFEAK_22 | 53840 | 53154 | CovR | 4.84e-120 | serves to repress GAS virulence factor-encoding genes | 81.66 | 100.00 | ACE75886 |
| NHIMFEAK_10 | 40094 | 40489 | SpxA2 | 4.01e-76 | transcriptional regulator | 91.67 | 100.00 | ERL21461 |
| NHIMFEAK_33 | 35003 | 34602 | SpxA1 | 1.41e-69 | transcriptional regulator | 82.09 | 100.00 | ERL19273 |
| NHIMFEAK_6 | 6826 | 6413 | GrpE | 2.33e-68 | protein grpE | 81.88 | 80.59 | ABP89267 |
| NHIMFEAK_22 | 30631 | 30344 | spr0479 | 5.86e-48 | essential gene | 85.42 | 98.97 | AAK99283 |
| NHIMFEAK_42 | 20954 | 21208 | spr1327 | 2.62e-44 | essential gene | 90.59 | 100.00 | AAL00131 |
| NHIMFEAK_13 | 1312 | 1049 | spr0175 | 1.54e-43 | pathogenitcity related | 85.23 | 100.00 | AAK98979 |
| NHIMFEAK_13 | 487 | 221 | spr0177 | 3.41e-42 | essential gene | 83.15 | 88.12 | AAK98981 |
| NHIMFEAK_22 | 219058 | 218567 | RopE (M5005_Spy_1611) | 1.07e-72 | probable DNA-directed RNA polymerase subunit delta | 83.54 | 85.86 | AAK34603 |
| NHIMFEAK_38 | 147584 | 145284 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 82.97 | 98.08 | MYN69560 |
| NHIMFEAK_18 | 9485 | 10504 | ilvC (SPD_0406) | 0.0 | ketol-acid reductoisomerase (NADP(+)) | 85.88 | 100.00 | ABJ55451 |
| NHIMFEAK_33 | 75462 | 74923 | pnuC | 2.90e-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 |
|---|---|---|---|
| NHIMFEAK_1 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_2 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_3 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_4 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_5 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_6 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_7 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_8 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_9 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_10 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_11 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_12 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_13 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_14 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_15 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_16 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_17 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_18 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_19 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_20 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_21 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_22 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_23 | 1.0 | 0.0 | 1.0 |
| NHIMFEAK_24 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_25 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_26 | 1.0 | 0.0 | 1.0 |
| NHIMFEAK_27 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_28 | 1.0 | 0.0 | 1.0 |
| NHIMFEAK_30 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_31 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_32 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_33 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_35 | 1.0 | 0.0 | 1.0 |
| NHIMFEAK_36 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_37 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_38 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_40 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_41 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_42 | 0.0 | 1.0 | 0.0 |
| NHIMFEAK_43 | 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)