Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 18 | 29 | 34.13 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| AMMFPMLM_1 | 1129545 | 1130414 | rfbA | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011681286 |
| AMMFPMLM_1 | 1128952 | 1129545 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011226149 |
| AMMFPMLM_1 | 1128952 | 1129545 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | WP_011226149 |
| AMMFPMLM_1 | 1128952 | 1129545 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | WP_011226149 |
| AMMFPMLM_1 | 902721 | 904379 | fbp54 | 0.0 | FBPs | Adherence | 99.58 | 100.00 | WP_011227179 |
| AMMFPMLM_1 | 44932 | 45771 | cbpD | 0.0 | Autolysin | Exoenzyme | 99.52 | 100.00 | WP_011226733 |
| AMMFPMLM_1 | 1007356 | 1008087 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 98.77 | 100.00 | WP_011681176 |
| AMMFPMLM_1 | 1074057 | 1074845 | cshA | 0.0 | Cell surface hydrophobicity proteins | Adherence | 98.36 | 99.75 | - |
| AMMFPMLM_1 | 1360038 | 1360754 | STER_RS07085 | 0.0 | Capsule | Immune modulation | 98.33 | 100.00 | WP_011681442 |
| AMMFPMLM_1 | 1007356 | 1008087 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 98.09 | 100.00 | WP_011226048 |
| AMMFPMLM_1 | 1007356 | 1008087 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 97.81 | 100.00 | WP_011227248 |
| AMMFPMLM_1 | 1005905 | 1006645 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 97.71 | 100.00 | WP_011681174 |
| AMMFPMLM_1 | 1366376 | 1367227 | rfbD | 0.0 | Capsule | Immune modulation | 97.65 | 100.00 | WP_014621820 |
| AMMFPMLM_1 | 1165738 | 1166499 | srtA | 0.0 | Sortase A | Exoenzyme | 97.64 | 100.00 | - |
| AMMFPMLM_1 | 1008088 | 1009543 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 97.60 | 99.66 | WP_011681177 |
| AMMFPMLM_1 | 1005905 | 1006645 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 97.57 | 100.00 | WP_011226046 |
| AMMFPMLM_1 | 1005910 | 1006645 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 97.01 | 98.13 | WP_011227246 |
| AMMFPMLM_1 | 1008088 | 1009543 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 96.84 | 99.86 | WP_011226049 |
| AMMFPMLM_1 | 1358916 | 1359692 | STER_RS07075 | 0.0 | Capsule | Immune modulation | 96.66 | 99.87 | WP_011681440 |
| AMMFPMLM_1 | 1008088 | 1009543 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 96.08 | 99.86 | WP_041827043 |
| AMMFPMLM_1 | 1004483 | 1005848 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 95.24 | 99.85 | WP_011681173 |
| AMMFPMLM_1 | 1004481 | 1005848 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 94.30 | 100.00 | WP_011226045 |
| AMMFPMLM_1 | 1006655 | 1007347 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 93.51 | 100.00 | WP_011226047 |
| AMMFPMLM_1 | 1006655 | 1007347 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 93.22 | 100.00 | WP_011227247 |
| AMMFPMLM_1 | 636856 | 638159 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.10 | 99.46 | WP_000022832 |
| AMMFPMLM_1 | 1006655 | 1007347 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 87.16 | 100.00 | WP_011681175 |
| AMMFPMLM_1 | 1653966 | 1654976 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 86.54 | 99.41 | WP_002986042 |
| AMMFPMLM_1 | 155732 | 157015 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.65 | 99.77 | WP_000107753 |
| AMMFPMLM_1 | 1127477 | 1128523 | rfbB | 0.0 | Capsule | Immune modulation | 80.61 | 100.00 | WP_009659423 |
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 |
|---|---|---|---|---|---|---|---|---|
| AMMFPMLM_1 | 1169186 | 1170169 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 94.82 | 100.00 | AAK75326 |
| AMMFPMLM_1 | 740144 | 741217 | MntE | 0.0 | manganese homeostasis | 94.41 | 99.72 | ABF32167 |
| AMMFPMLM_1 | 553171 | 554139 | spr0084 | 0.0 | pathogenitcity related | 93.19 | 98.48 | AAK98888 |
| AMMFPMLM_1 | 1531039 | 1533342 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 92.84 | 99.22 | AAK74619 |
| AMMFPMLM_1 | 776705 | 778951 | metE | 0.0 | methionine biosynthesis enzymes | 91.99 | 100.00 | AAK74738 |
| AMMFPMLM_1 | 1249534 | 1251015 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 91.90 | 100.00 | ABJ54480 |
| AMMFPMLM_1 | 71536 | 72528 | recA | 0.0 | DNA recombination and repair | 91.24 | 85.31 | AAL00560 |
| AMMFPMLM_1 | 27202 | 28173 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 90.12 | 100.00 | ABF36968 |
| AMMFPMLM_1 | 1417247 | 1416096 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.32 | 99.74 | AAL00050 |
| AMMFPMLM_1 | 1380287 | 1378299 | uvrB | 0.0 | excinuclease ABC, B subunit | 88.99 | 100.00 | AE014259_2 |
| AMMFPMLM_1 | 1152989 | 1151259 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 88.04 | 100.00 | AAK34199 |
| AMMFPMLM_1 | 1848993 | 1847515 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.42 | 100.00 | ADE32434 |
| AMMFPMLM_1 | 636856 | 638157 | Eno | 0.0 | enolase | 86.21 | 99.77 | ABP90468 |
| AMMFPMLM_1 | 1833804 | 1831912 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 86.05 | 98.90 | ABP91129 |
| AMMFPMLM_1 | 781876 | 780167 | PGM | 0.0 | phosphoglucomutase | 84.06 | 99.65 | ACH87041 |
| AMMFPMLM_1 | 1695957 | 1696967 | pdh | 0.0 | pyruvate dehydrogenase | 83.09 | 99.70 | ABP91006 |
| AMMFPMLM_1 | 926377 | 925016 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.24 | 99.56 | ABP90420 |
| AMMFPMLM_1 | 1746227 | 1744335 | PepO | 0.0 | endopeptidase | 80.03 | 100.00 | ABF32980 |
| AMMFPMLM_1 | 622421 | 623311 | bglB | 5.27e-178 | putative phospho--glucosidase | 88.55 | 99.66 | AAK33487 |
| AMMFPMLM_1 | 842934 | 841996 | SP_0676 | 2.36e-167 | transcription facot | 81.15 | 97.20 | AAK74821 |
| AMMFPMLM_1 | 779143 | 780000 | metF | 1.54e-164 | methionine biosynthesis enzymes | 86.36 | 99.31 | AAK74739 |
| AMMFPMLM_1 | 1046377 | 1045673 | covR | 4.40e-131 | responder protein | 85.53 | 100.00 | AAK71319 |
| AMMFPMLM_1 | 1217171 | 1216500 | rr01 | 3.02e-124 | response regulator | 83.93 | 99.56 | CAB54566 |
| AMMFPMLM_1 | 785830 | 786498 | CiaR | 2.80e-123 | two-component response regulator | 87.00 | 99.55 | AAK74935 |
| AMMFPMLM_1 | 1046377 | 1045673 | walR | 1.85e-121 | DNA-binding response regulator | 82.13 | 100.00 | ANC99504 |
| AMMFPMLM_1 | 785830 | 786501 | ciaR | 2.73e-121 | two component system response regulator | 84.82 | 99.12 | AIK75708 |
| AMMFPMLM_1 | 310118 | 310804 | CovR | 1.01e-117 | serves to repress GAS virulence factor-encoding genes | 80.79 | 100.00 | ACE75886 |
| AMMFPMLM_1 | 72840 | 73235 | SpxA2 | 3.72e-74 | transcriptional regulator | 90.91 | 100.00 | ERL21461 |
| AMMFPMLM_1 | 937736 | 938137 | SpxA1 | 3.78e-66 | transcriptional regulator | 80.60 | 100.00 | ERL19273 |
| AMMFPMLM_1 | 157173 | 157673 | RopE (M5005_Spy_1611) | 4.94e-75 | probable DNA-directed RNA polymerase subunit delta | 81.44 | 87.43 | AAK34603 |
| AMMFPMLM_1 | 1531039 | 1533336 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 82.81 | 98.08 | MYN69560 |
| AMMFPMLM_1 | 1731819 | 1730800 | ilvC (SPD_0406) | 0.0 | ketol-acid reductoisomerase (NADP(+)) | 95.88 | 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 |
|---|---|---|---|
| AMMFPMLM_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)