Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 19 | 28 | 33.84 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| GFGFMMDL_1 | 1089850 | 1090443 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | WP_011226149 |
| GFGFMMDL_1 | 30864 | 31703 | cbpD | 0.0 | Autolysin | Exoenzyme | 99.52 | 100.00 | WP_011226733 |
| GFGFMMDL_1 | 1089850 | 1090443 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 99.50 | 100.00 | WP_011226149 |
| GFGFMMDL_1 | 1089850 | 1090443 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 99.50 | 100.00 | WP_011226149 |
| GFGFMMDL_1 | 1090443 | 1091312 | rfbA | 0.0 | Capsule | Immune modulation | 99.42 | 100.00 | WP_011681286 |
| GFGFMMDL_1 | 962863 | 963594 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 99.18 | 100.00 | WP_011681176 |
| GFGFMMDL_1 | 848538 | 850196 | fbp54 | 0.0 | FBPs | Adherence | 99.16 | 100.00 | WP_011227179 |
| GFGFMMDL_1 | 635246 | 636034 | cshA | 0.0 | Cell surface hydrophobicity proteins | Adherence | 98.86 | 99.75 | - |
| GFGFMMDL_1 | 962863 | 963594 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 98.77 | 100.00 | WP_011227248 |
| GFGFMMDL_1 | 961412 | 962152 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 98.65 | 100.00 | WP_011681174 |
| GFGFMMDL_1 | 962863 | 963594 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 98.63 | 100.00 | WP_011226048 |
| GFGFMMDL_1 | 1125967 | 1126728 | srtA | 0.0 | Sortase A | Exoenzyme | 98.56 | 100.00 | - |
| GFGFMMDL_1 | 1317322 | 1318038 | STER_RS07085 | 0.0 | Capsule | Immune modulation | 98.33 | 100.00 | WP_011681442 |
| GFGFMMDL_1 | 961412 | 962152 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 98.25 | 100.00 | WP_011226046 |
| GFGFMMDL_1 | 963595 | 965055 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 98.02 | 100.00 | WP_011681177 |
| GFGFMMDL_1 | 961417 | 962152 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 97.96 | 98.13 | WP_011227246 |
| GFGFMMDL_1 | 963595 | 965055 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 96.99 | 100.21 | WP_011226049 |
| GFGFMMDL_1 | 1316206 | 1316976 | STER_RS07075 | 0.0 | Capsule | Immune modulation | 96.89 | 99.10 | WP_011681440 |
| GFGFMMDL_1 | 962162 | 962854 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 96.83 | 99.86 | WP_011226047 |
| GFGFMMDL_1 | 962162 | 962854 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 96.54 | 100.00 | WP_011227247 |
| GFGFMMDL_1 | 963595 | 965055 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 96.37 | 100.21 | WP_041827043 |
| GFGFMMDL_1 | 959990 | 961355 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 95.17 | 99.85 | WP_011681173 |
| GFGFMMDL_1 | 959988 | 961355 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 94.22 | 100.00 | WP_011226045 |
| GFGFMMDL_1 | 1322182 | 1323033 | rfbD | 0.0 | Capsule | Immune modulation | 94.13 | 100.00 | WP_014621820 |
| GFGFMMDL_1 | 962162 | 962854 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 89.90 | 100.00 | WP_011681175 |
| GFGFMMDL_1 | 551320 | 552623 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.02 | 99.46 | WP_000022832 |
| GFGFMMDL_1 | 1602776 | 1603786 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 86.43 | 99.51 | WP_002986042 |
| GFGFMMDL_1 | 1088374 | 1089420 | rfbB | 0.0 | Capsule | Immune modulation | 80.61 | 100.00 | WP_009659423 |
| GFGFMMDL_1 | 100194 | 101477 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.58 | 99.77 | WP_000107753 |
| GFGFMMDL_1 | 951828 | 952411 | SPD_RS01775 | 1.08e-146 | Capsule | Immune modulation | 83.08 | 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 |
|---|---|---|---|---|---|---|---|---|
| GFGFMMDL_1 | 1009201 | 1008128 | MntE | 0.0 | manganese homeostasis | 94.69 | 99.72 | ABF32167 |
| GFGFMMDL_1 | 1129415 | 1130398 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 94.51 | 100.00 | AAK75326 |
| GFGFMMDL_1 | 468959 | 469927 | spr0084 | 0.0 | pathogenitcity related | 93.19 | 98.48 | AAK98888 |
| GFGFMMDL_1 | 1480366 | 1482669 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 92.84 | 99.22 | AAK74619 |
| GFGFMMDL_1 | 1208083 | 1209564 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 91.90 | 100.00 | ABJ54480 |
| GFGFMMDL_1 | 988675 | 986429 | metE | 0.0 | methionine biosynthesis enzymes | 91.59 | 100.00 | AAK74738 |
| GFGFMMDL_1 | 50493 | 51494 | recA | 0.0 | DNA recombination and repair | 91.02 | 86.08 | AAL00560 |
| GFGFMMDL_1 | 14238 | 15209 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 90.12 | 100.00 | ABF36968 |
| GFGFMMDL_1 | 1364560 | 1363409 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.32 | 99.74 | AAL00050 |
| GFGFMMDL_1 | 1336566 | 1334578 | uvrB | 0.0 | excinuclease ABC, B subunit | 88.84 | 100.00 | AE014259_2 |
| GFGFMMDL_1 | 1112464 | 1110734 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 88.73 | 100.00 | AAK34199 |
| GFGFMMDL_1 | 1777090 | 1775612 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.83 | 100.00 | ADE32434 |
| GFGFMMDL_1 | 551320 | 552621 | Eno | 0.0 | enolase | 86.44 | 99.77 | ABP90468 |
| GFGFMMDL_1 | 1762031 | 1760139 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.74 | 98.90 | ABP91129 |
| GFGFMMDL_1 | 983504 | 985213 | PGM | 0.0 | phosphoglucomutase | 84.06 | 99.65 | ACH87041 |
| GFGFMMDL_1 | 1640561 | 1641571 | pdh | 0.0 | pyruvate dehydrogenase | 83.09 | 99.70 | ABP91006 |
| GFGFMMDL_1 | 883128 | 881767 | mnmE | 0.0 | central tRNA-modifying GTPase | 81.80 | 99.56 | ABP90420 |
| GFGFMMDL_1 | 1690825 | 1688933 | PepO | 0.0 | endopeptidase | 80.19 | 100.00 | ABF32980 |
| GFGFMMDL_1 | 536891 | 537781 | bglB | 1.31e-178 | putative phospho--glucosidase | 88.89 | 99.66 | AAK33487 |
| GFGFMMDL_1 | 746571 | 745633 | SP_0676 | 2.32e-167 | transcription facot | 81.15 | 97.20 | AAK74821 |
| GFGFMMDL_1 | 986237 | 985380 | metF | 1.78e-165 | methionine biosynthesis enzymes | 86.71 | 99.31 | AAK74739 |
| GFGFMMDL_1 | 674576 | 675280 | covR | 3.42e-130 | responder protein | 84.68 | 100.00 | AAK71319 |
| GFGFMMDL_1 | 1189110 | 1188439 | rr01 | 1.25e-125 | response regulator | 84.38 | 99.56 | CAB54566 |
| GFGFMMDL_1 | 979551 | 978883 | CiaR | 8.85e-124 | two-component response regulator | 87.00 | 99.55 | AAK74935 |
| GFGFMMDL_1 | 979551 | 978880 | ciaR | 2.50e-121 | two component system response regulator | 84.82 | 99.12 | AIK75708 |
| GFGFMMDL_1 | 674576 | 675280 | walR | 8.96e-121 | DNA-binding response regulator | 81.70 | 100.00 | ANC99504 |
| GFGFMMDL_1 | 256478 | 257164 | CovR | 9.91e-118 | serves to repress GAS virulence factor-encoding genes | 80.79 | 100.00 | ACE75886 |
| GFGFMMDL_1 | 51767 | 52162 | SpxA2 | 3.65e-74 | transcriptional regulator | 90.91 | 100.00 | ERL21461 |
| GFGFMMDL_1 | 101635 | 102135 | RopE (M5005_Spy_1611) | 9.18e-75 | probable DNA-directed RNA polymerase subunit delta | 81.44 | 87.43 | AAK34603 |
| GFGFMMDL_1 | 1480390 | 1482663 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 83.55 | 97.06 | MYN69560 |
| GFGFMMDL_1 | 1676443 | 1675424 | 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. |
|---|---|---|---|---|---|---|
| GFGFMMDL_1 | 1803109 | 1804056 | rep37 | 948 / 945 | 90.82 | HM050421 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| GFGFMMDL_1 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| GFGFMMDL_1 | 757855 | 809143 | False | Siphoviridae | VOG4571, VOG4571, VOG1020, VOG3490, VOG0052, VOG0322, VOG0275, VOG7656, VOG4602, VOG6127, VOG3622, VOG4552, VOG8337, VOG11077, VOG0650, VOG1638, VOG0651, VOG5321, VOG4566, VOG0189, VOG3430, VOG1309, VOG0685, VOG0226, VOG4693, VOG0655, VOG3468, VOG0656, VOG0656, VOG6414, VOG0152, VOG9667, VOG0657, VOG0044, VOG0658, VOG0198, VOG0796, VOG4544, VOG0720, VOG4564, VOG4555, VOG3434, VOG1887, VOG3435, VOG4713, VOG0723, VOG5660, VOG0724, VOG0799, VOG0725, VOG0800, VOG3636, VOG4605, VOG4985, VOG4599, VOG0647, VOG4782, VOG3298, VOG3424, VOG0054, VOG4649, VOG3299, VOG3300, VOG3303, VOG10946 |
Phigaro v2.4.0 (Database: Jan. 2024 release)