Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 18 | 27 | 32.45 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| GDMGHCMF_1 | 1395438 | 1396406 | STER_RS07090 | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011681443 |
| GDMGHCMF_1 | 1164207 | 1164800 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | WP_011226149 |
| GDMGHCMF_1 | 1164207 | 1164800 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | WP_011226149 |
| GDMGHCMF_1 | 1164207 | 1164800 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | WP_011226149 |
| GDMGHCMF_1 | 1164800 | 1165669 | rfbA | 0.0 | Capsule | Immune modulation | 99.42 | 100.00 | WP_011681286 |
| GDMGHCMF_1 | 21111 | 21950 | cbpD | 0.0 | Autolysin | Exoenzyme | 99.41 | 100.00 | WP_011226733 |
| GDMGHCMF_1 | 1396424 | 1397401 | STER_RS07095 | 0.0 | Capsule | Immune modulation | 99.39 | 100.00 | WP_011681444 |
| GDMGHCMF_1 | 881452 | 883110 | fbp54 | 0.0 | FBPs | Adherence | 99.34 | 100.00 | WP_011227179 |
| GDMGHCMF_1 | 1393599 | 1394375 | STER_RS07075 | 0.0 | Capsule | Immune modulation | 99.10 | 100.00 | WP_011681440 |
| GDMGHCMF_1 | 1398775 | 1399626 | rfbD | 0.0 | Capsule | Immune modulation | 98.36 | 100.00 | WP_014621820 |
| GDMGHCMF_1 | 1394721 | 1395437 | STER_RS07085 | 0.0 | Capsule | Immune modulation | 98.33 | 100.00 | WP_011681442 |
| GDMGHCMF_1 | 984227 | 985687 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 97.95 | 100.00 | WP_011681177 |
| GDMGHCMF_1 | 1202278 | 1203039 | srtA | 0.0 | Sortase A | Exoenzyme | 97.64 | 100.00 | - |
| GDMGHCMF_1 | 984227 | 985687 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 96.92 | 100.21 | WP_011226049 |
| GDMGHCMF_1 | 1397398 | 1398656 | STER_RS07100 | 0.0 | Capsule | Immune modulation | 96.43 | 99.92 | WP_011681445 |
| GDMGHCMF_1 | 984227 | 985687 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 96.30 | 100.21 | WP_041827043 |
| GDMGHCMF_1 | 1052682 | 1053460 | cshA | 0.0 | Cell surface hydrophobicity proteins | Adherence | 92.81 | 99.37 | - |
| GDMGHCMF_1 | 600037 | 601340 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 87.41 | 99.54 | WP_000022832 |
| GDMGHCMF_1 | 1679299 | 1680309 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 86.96 | 99.90 | WP_002986042 |
| GDMGHCMF_1 | 1162731 | 1163777 | rfbB | 0.0 | Capsule | Immune modulation | 83.30 | 99.90 | WP_002263087 |
| GDMGHCMF_1 | 114688 | 115971 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.99 | 99.61 | WP_000107753 |
| GDMGHCMF_1 | 980256 | 980839 | SPD_RS01775 | 5.18e-145 | Capsule | Immune modulation | 82.91 | 96.20 | WP_001819836 |
| GDMGHCMF_1 | 983762 | 984226 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 98.06 | 63.52 | WP_011226048 |
| GDMGHCMF_1 | 983762 | 984226 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 97.85 | 63.52 | WP_011681176 |
| GDMGHCMF_1 | 983762 | 984226 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 97.85 | 63.52 | WP_011227248 |
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 |
|---|---|---|---|---|---|---|---|---|
| GDMGHCMF_1 | 754976 | 756049 | MntE | 0.0 | manganese homeostasis | 94.41 | 99.72 | ABF32167 |
| GDMGHCMF_1 | 1205726 | 1206709 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 94.21 | 100.00 | AAK75326 |
| GDMGHCMF_1 | 515677 | 516645 | spr0084 | 0.0 | pathogenitcity related | 92.88 | 98.48 | AAK98888 |
| GDMGHCMF_1 | 1553340 | 1555643 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 92.32 | 99.22 | AAK74619 |
| GDMGHCMF_1 | 1278645 | 1280126 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 91.90 | 100.00 | ABJ54480 |
| GDMGHCMF_1 | 774884 | 777130 | metE | 0.0 | methionine biosynthesis enzymes | 91.72 | 100.00 | AAK74738 |
| GDMGHCMF_1 | 4623 | 5594 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 90.12 | 100.00 | ABF36968 |
| GDMGHCMF_1 | 1440578 | 1439427 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.06 | 99.74 | AAL00050 |
| GDMGHCMF_1 | 1412979 | 1410991 | uvrB | 0.0 | excinuclease ABC, B subunit | 88.99 | 100.00 | AE014259_2 |
| GDMGHCMF_1 | 1189541 | 1187811 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 88.04 | 100.00 | AAK34199 |
| GDMGHCMF_1 | 1125690 | 1127168 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.02 | 100.00 | ADE32434 |
| GDMGHCMF_1 | 600037 | 601338 | Eno | 0.0 | enolase | 85.75 | 99.77 | ABP90468 |
| GDMGHCMF_1 | 52046 | 53137 | recA | 0.0 | DNA recombination and repair | 85.44 | 95.10 | AAL00560 |
| GDMGHCMF_1 | 1140435 | 1142327 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 84.94 | 98.90 | ABP91129 |
| GDMGHCMF_1 | 780055 | 778346 | PGM | 0.0 | phosphoglucomutase | 83.89 | 99.65 | ACH87041 |
| GDMGHCMF_1 | 1752972 | 1753982 | pdh | 0.0 | pyruvate dehydrogenase | 82.20 | 99.70 | ABP91006 |
| GDMGHCMF_1 | 914986 | 913625 | mnmE | 0.0 | central tRNA-modifying GTPase | 81.14 | 99.56 | ABP90420 |
| GDMGHCMF_1 | 1802409 | 1800517 | PepO | 0.0 | endopeptidase | 80.19 | 100.00 | ABF32980 |
| GDMGHCMF_1 | 585601 | 586491 | bglB | 1.35e-178 | putative phospho--glucosidase | 88.89 | 99.66 | AAK33487 |
| GDMGHCMF_1 | 828548 | 827610 | SP_0676 | 1.14e-166 | transcription facot | 81.15 | 97.20 | AAK74821 |
| GDMGHCMF_1 | 777322 | 778179 | metF | 5.36e-164 | methionine biosynthesis enzymes | 85.66 | 99.31 | AAK74739 |
| GDMGHCMF_1 | 1021675 | 1020971 | covR | 2.26e-130 | responder protein | 85.11 | 100.00 | AAK71319 |
| GDMGHCMF_1 | 1250552 | 1249881 | rr01 | 4.21e-126 | response regulator | 84.82 | 99.56 | CAB54566 |
| GDMGHCMF_1 | 784011 | 784679 | CiaR | 5.74e-124 | two-component response regulator | 87.00 | 99.55 | AAK74935 |
| GDMGHCMF_1 | 784011 | 784682 | ciaR | 2.53e-122 | two component system response regulator | 85.27 | 99.12 | AIK75708 |
| GDMGHCMF_1 | 1021675 | 1020971 | walR | 9.08e-121 | DNA-binding response regulator | 81.70 | 100.00 | ANC99504 |
| GDMGHCMF_1 | 53320 | 53715 | SpxA2 | 1.96e-72 | transcriptional regulator | 89.39 | 100.00 | ERL21461 |
| GDMGHCMF_1 | 116129 | 116629 | RopE (M5005_Spy_1611) | 3.60e-75 | probable DNA-directed RNA polymerase subunit delta | 82.04 | 87.43 | AAK34603 |
| GDMGHCMF_1 | 1553364 | 1555637 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 83.03 | 97.06 | MYN69560 |
| GDMGHCMF_1 | 1788334 | 1787315 | 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. |
|---|---|---|---|---|---|---|
| GDMGHCMF_1 | 1870000 | 1870947 | 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 |
|---|---|---|---|
| GDMGHCMF_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 |
|---|---|---|---|---|---|
| No hit found | |||||
Phigaro v2.4.0 (Database: Jan. 2024 release)