Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 29 | 34 | 44.69 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| BOMMHMFE_61 | 75353 | 76069 | STER_RS07085 | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011681442 |
| BOMMHMFE_61 | 74384 | 75352 | STER_RS07090 | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011681443 |
| BOMMHMFE_61 | 83124 | 84869 | STER_RS07045 | 0.0 | Capsule | Immune modulation | 99.94 | 100.00 | WP_011681434 |
| BOMMHMFE_61 | 81422 | 83122 | STER_RS07050 | 0.0 | Capsule | Immune modulation | 99.94 | 100.00 | WP_041827753 |
| BOMMHMFE_61 | 77310 | 78458 | STER_RS07070 | 0.0 | Capsule | Immune modulation | 99.91 | 100.00 | WP_011681439 |
| BOMMHMFE_61 | 78455 | 79396 | STER_RS07065 | 0.0 | Capsule | Immune modulation | 99.89 | 100.00 | WP_011681438 |
| BOMMHMFE_61 | 76415 | 77191 | STER_RS07075 | 0.0 | Capsule | Immune modulation | 99.87 | 100.00 | WP_011681440 |
| BOMMHMFE_61 | 80202 | 81404 | STER_RS07055 | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | WP_011681436 |
| BOMMHMFE_61 | 81422 | 83122 | STR_RS06890 | 0.0 | Capsule | Immune modulation | 99.77 | 100.00 | WP_041827077 |
| BOMMHMFE_61 | 79396 | 80202 | STER_RS07060 | 0.0 | Capsule | Immune modulation | 99.63 | 100.00 | WP_011681437 |
| BOMMHMFE_61 | 80202 | 81404 | STR_RS06895 | 0.0 | Capsule | Immune modulation | 99.58 | 100.00 | WP_011227428 |
| BOMMHMFE_37 | 139642 | 140785 | cshA | 0.0 | Cell surface hydrophobicity proteins | Adherence | 99.56 | 100.00 | - |
| BOMMHMFE_4 | 29983 | 30822 | cbpD | 0.0 | Autolysin | Exoenzyme | 99.41 | 100.00 | WP_011226733 |
| BOMMHMFE_1 | 13213 | 14871 | fbp54 | 0.0 | FBPs | Adherence | 99.40 | 100.00 | WP_011227179 |
| BOMMHMFE_61 | 73389 | 74366 | STER_RS07095 | 0.0 | Capsule | Immune modulation | 99.39 | 100.00 | WP_011681444 |
| BOMMHMFE_61 | 78455 | 79396 | STR_RS06905 | 0.0 | Capsule | Immune modulation | 99.36 | 100.00 | WP_011227430 |
| BOMMHMFE_61 | 77310 | 78458 | STR_RS06910 | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | WP_011227431 |
| BOMMHMFE_49 | 2917 | 3510 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 99.16 | 100.00 | WP_011226149 |
| BOMMHMFE_61 | 79396 | 80202 | STR_RS06900 | 0.0 | Capsule | Immune modulation | 99.13 | 100.00 | WP_011227429 |
| BOMMHMFE_49 | 3510 | 4379 | rfbA | 0.0 | Capsule | Immune modulation | 99.08 | 100.00 | WP_011681286 |
| BOMMHMFE_49 | 2917 | 3510 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 98.99 | 100.00 | WP_011226149 |
| BOMMHMFE_49 | 2917 | 3510 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 98.99 | 100.00 | WP_011226149 |
| BOMMHMFE_49 | 38267 | 39028 | srtA | 0.0 | Sortase A | Exoenzyme | 98.56 | 100.00 | - |
| BOMMHMFE_61 | 71164 | 72015 | rfbD | 0.0 | Capsule | Immune modulation | 98.47 | 100.00 | WP_014621820 |
| BOMMHMFE_61 | 83124 | 84869 | STR_RS06885 | 0.0 | Capsule | Immune modulation | 98.28 | 100.00 | WP_011227426 |
| BOMMHMFE_27 | 13696 | 14427 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 97.40 | 100.00 | WP_011681176 |
| BOMMHMFE_27 | 14428 | 15888 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 97.40 | 100.00 | WP_011681177 |
| BOMMHMFE_27 | 13696 | 14427 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 97.40 | 100.00 | WP_011226048 |
| BOMMHMFE_27 | 13696 | 14427 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 97.27 | 100.00 | WP_011227248 |
| BOMMHMFE_27 | 12995 | 13687 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 97.26 | 100.00 | WP_011226047 |
| BOMMHMFE_27 | 12995 | 13687 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 96.97 | 100.00 | WP_011227247 |
| BOMMHMFE_27 | 14428 | 15888 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 96.78 | 100.21 | WP_011226049 |
| BOMMHMFE_61 | 72134 | 73392 | STER_RS07100 | 0.0 | Capsule | Immune modulation | 96.43 | 99.92 | WP_011681445 |
| BOMMHMFE_27 | 14428 | 15888 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 96.10 | 100.21 | WP_041827043 |
| BOMMHMFE_27 | 12245 | 12985 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 96.09 | 100.00 | WP_011226046 |
| BOMMHMFE_27 | 12245 | 12985 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 95.95 | 100.00 | WP_011681174 |
| BOMMHMFE_8 | 105343 | 110238 | SAG_RS09105 | 0.0 | Agglutinin receptor | Adherence | 95.81 | 99.96 | WP_000167699 |
| BOMMHMFE_8 | 105343 | 110286 | SSU98_0978 | 0.0 | Agglutinin receptor | Adherence | 95.73 | 99.78 | YP_001200536 |
| BOMMHMFE_8 | 105343 | 110286 | SSU05_0965 | 0.0 | Agglutinin receptor | Adherence | 95.71 | 99.78 | YP_001198331 |
| BOMMHMFE_27 | 12250 | 12985 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 95.65 | 98.13 | WP_011227246 |
| BOMMHMFE_27 | 10823 | 12188 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 95.24 | 99.85 | WP_011681173 |
| BOMMHMFE_27 | 10821 | 12188 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 94.30 | 100.00 | WP_011226045 |
| BOMMHMFE_27 | 12995 | 13687 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 90.77 | 100.00 | WP_011681175 |
| BOMMHMFE_37 | 40967 | 42270 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 87.94 | 99.54 | WP_000022832 |
| BOMMHMFE_46 | 14332 | 15342 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 86.74 | 99.41 | WP_002986042 |
| BOMMHMFE_61 | 79396 | 80202 | SGO_RS05020 | 0.0 | Capsule | Immune modulation | 83.27 | 100.00 | WP_012000440 |
| BOMMHMFE_8 | 128683 | 129966 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.73 | 99.77 | WP_000107753 |
| BOMMHMFE_49 | 1441 | 2487 | rfbB | 0.0 | Capsule | Immune modulation | 80.61 | 100.00 | WP_009659423 |
| BOMMHMFE_27 | 1330 | 1913 | SPD_RS01775 | 3.60e-145 | Capsule | Immune modulation | 82.73 | 96.20 | WP_001819836 |
| BOMMHMFE_61 | 80202 | 80939 | SGO_RS05025 | 0.0 | Capsule | Immune modulation | 84.96 | 60.29 | WP_012000441 |
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 |
|---|---|---|---|---|---|---|---|---|
| BOMMHMFE_8 | 110259 | 105346 | B9H01_RS04765 | 0.0 | glucan-binding protein | 97.19 | 99.70 | AUS90958 |
| BOMMHMFE_81 | 25657 | 26730 | MntE | 0.0 | manganese homeostasis | 94.97 | 99.72 | ABF32167 |
| BOMMHMFE_49 | 41715 | 42698 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 94.82 | 100.00 | AAK75326 |
| BOMMHMFE_37 | 124276 | 123308 | spr0084 | 0.0 | pathogenitcity related | 93.19 | 98.48 | AAK98888 |
| BOMMHMFE_62 | 11177 | 8874 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 92.32 | 99.22 | AAK74619 |
| BOMMHMFE_50 | 19733 | 18252 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 91.90 | 100.00 | ABJ54480 |
| BOMMHMFE_2 | 6196 | 8442 | metE | 0.0 | methionine biosynthesis enzymes | 91.72 | 100.00 | AAK74738 |
| BOMMHMFE_4 | 1974 | 976 | recA | 0.0 | DNA recombination and repair | 91.29 | 85.82 | AAL00560 |
| BOMMHMFE_17 | 15562 | 14591 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 90.12 | 100.00 | ABF36968 |
| BOMMHMFE_61 | 21500 | 22651 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.32 | 99.74 | AAL00050 |
| BOMMHMFE_61 | 57665 | 59653 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.14 | 100.00 | AE014259_2 |
| BOMMHMFE_49 | 25528 | 23798 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 87.87 | 100.00 | AAK34199 |
| BOMMHMFE_83 | 28069 | 26591 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.83 | 100.00 | ADE32434 |
| BOMMHMFE_37 | 42270 | 40969 | Eno | 0.0 | enolase | 85.98 | 99.77 | ABP90468 |
| BOMMHMFE_83 | 12871 | 10979 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.42 | 98.90 | ABP91129 |
| BOMMHMFE_2 | 11367 | 9658 | PGM | 0.0 | phosphoglucomutase | 84.06 | 99.65 | ACH87041 |
| BOMMHMFE_44 | 20238 | 21248 | pdh | 0.0 | pyruvate dehydrogenase | 83.09 | 99.70 | ABP91006 |
| BOMMHMFE_1 | 28260 | 26899 | mnmE | 0.0 | central tRNA-modifying GTPase | 81.80 | 99.56 | ABP90420 |
| BOMMHMFE_44 | 70544 | 68652 | PepO | 0.0 | endopeptidase | 80.03 | 100.00 | ABF32980 |
| BOMMHMFE_37 | 56702 | 55812 | bglB | 1.40e-179 | putative phospho--glucosidase | 88.89 | 99.66 | AAK33487 |
| BOMMHMFE_82 | 57091 | 56153 | SP_0676 | 1.31e-168 | transcription facot | 81.15 | 97.20 | AAK74821 |
| BOMMHMFE_2 | 8634 | 9491 | metF | 1.05e-166 | methionine biosynthesis enzymes | 86.36 | 99.31 | AAK74739 |
| BOMMHMFE_3 | 29811 | 30515 | covR | 1.29e-132 | responder protein | 85.53 | 100.00 | AAK71319 |
| BOMMHMFE_59 | 34792 | 35463 | rr01 | 1.22e-127 | response regulator | 84.82 | 99.56 | CAB54566 |
| BOMMHMFE_2 | 15321 | 15989 | CiaR | 1.15e-125 | two-component response regulator | 87.44 | 99.55 | AAK74935 |
| BOMMHMFE_2 | 15321 | 15992 | ciaR | 1.23e-123 | two component system response regulator | 85.27 | 99.12 | AIK75708 |
| BOMMHMFE_3 | 29811 | 30515 | walR | 5.42e-123 | DNA-binding response regulator | 82.13 | 100.00 | ANC99504 |
| BOMMHMFE_24 | 7830 | 7144 | CovR | 3.93e-120 | serves to repress GAS virulence factor-encoding genes | 81.22 | 100.00 | ACE75886 |
| BOMMHMFE_4 | 700 | 305 | SpxA2 | 6.21e-76 | transcriptional regulator | 90.91 | 100.00 | ERL21461 |
| BOMMHMFE_18 | 25486 | 25199 | spr0479 | 1.26e-48 | essential gene | 84.38 | 98.97 | AAK99283 |
| BOMMHMFE_42 | 511 | 257 | spr1327 | 1.69e-46 | essential gene | 95.29 | 100.00 | AAL00131 |
| BOMMHMFE_47 | 12973 | 13236 | spr0175 | 1.38e-41 | pathogenitcity related | 82.95 | 100.00 | AAK98979 |
| BOMMHMFE_47 | 13800 | 14066 | spr0177 | 5.78e-34 | essential gene | 84.27 | 88.12 | AAK98981 |
| BOMMHMFE_8 | 128525 | 128025 | RopE (M5005_Spy_1611) | 2.53e-76 | probable DNA-directed RNA polymerase subunit delta | 82.04 | 87.43 | AAK34603 |
| BOMMHMFE_62 | 11177 | 8880 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 82.29 | 98.08 | MYN69560 |
| BOMMHMFE_37 | 147072 | 145882 | AUS90997 (B9H01_RS07385) | 0.0 | site-specific integrase | 88.67 | 99.50 | AUS90997 |
| BOMMHMFE_44 | 56107 | 55088 | 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 |
|---|---|---|---|
| BOMMHMFE_1 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_2 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_3 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_4 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_5 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_6 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_7 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_8 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_10 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_12 | 1.0 | 0.0 | 1.0 |
| BOMMHMFE_15 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_16 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_17 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_18 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_19 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_20 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_22 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_23 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_24 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_25 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_26 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_27 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_29 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_31 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_32 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_33 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_35 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_37 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_38 | 1.0 | 0.0 | 1.0 |
| BOMMHMFE_39 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_40 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_41 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_42 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_44 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_46 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_47 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_48 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_49 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_50 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_51 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_52 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_53 | 1.0 | 0.0 | 1.0 |
| BOMMHMFE_54 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_55 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_56 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_57 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_58 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_59 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_60 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_61 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_62 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_63 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_64 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_65 | 1.0 | 0.0 | 1.0 |
| BOMMHMFE_66 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_67 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_68 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_69 | 1.0 | 0.0 | 1.0 |
| BOMMHMFE_70 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_71 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_72 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_73 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_74 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_75 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_76 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_77 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_78 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_79 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_80 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_81 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_82 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_83 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_84 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_85 | 0.0 | 1.0 | 0.0 |
| BOMMHMFE_86 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| BOMMHMFE_37 | 999 | 39595 | False | Siphoviridae | VOG3301, VOG3300, VOG3299, VOG4649, VOG0054, VOG3424, VOG3298, VOG4782, VOG0647, VOG4599, VOG4605, VOG0800, VOG0725, VOG0799, VOG0724, VOG5660, VOG0723, VOG4713, VOG3435, VOG1887, VOG3434, VOG4555, VOG4564, VOG0720, VOG4544, VOG0796, VOG0198, VOG0658, VOG0044, VOG0657, VOG6495, VOG0152, VOG0044, VOG0152, VOG0656, VOG3468, VOG0655, VOG4693, VOG0226, VOG0685, VOG0283, VOG3430, VOG0189, VOG4566, VOG0651, VOG8482, VOG3478, VOG9469, VOG1564, VOG3622, VOG0743, VOG4602 |
Phigaro v2.4.0 (Database: Jan. 2024 release)