Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 25 | 33 | 41.40 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| LMMGOCDP_23 | 19508 | 20377 | rfbA | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011681286 |
| LMMGOCDP_23 | 20377 | 20970 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011226149 |
| LMMGOCDP_29 | 20789 | 21598 | STU_RS16245 | 0.0 | Capsule | Immune modulation | 99.88 | 100.00 | WP_002948020 |
| LMMGOCDP_23 | 20377 | 20970 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | WP_011226149 |
| LMMGOCDP_29 | 21582 | 22538 | STU_RS16250 | 0.0 | Capsule | Immune modulation | 99.79 | 100.00 | WP_011226328 |
| LMMGOCDP_29 | 22535 | 23683 | STU_RS16255 | 0.0 | Capsule | Immune modulation | 99.74 | 100.00 | WP_041828290 |
| LMMGOCDP_23 | 20377 | 20970 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | WP_011226149 |
| LMMGOCDP_29 | 27179 | 28030 | rfbD | 0.0 | Capsule | Immune modulation | 99.65 | 100.00 | WP_014621820 |
| LMMGOCDP_1 | 13093 | 14751 | fbp54 | 0.0 | FBPs | Adherence | 99.58 | 100.00 | WP_011227179 |
| LMMGOCDP_29 | 19584 | 20789 | STU_RS16240 | 0.0 | Capsule | Immune modulation | 99.58 | 100.00 | WP_011226326 |
| LMMGOCDP_29 | 23792 | 24802 | STU_RS16260 | 0.0 | Capsule | Immune modulation | 99.50 | 100.00 | WP_011226330 |
| LMMGOCDP_29 | 16728 | 18512 | STU_RS16230 | 0.0 | Capsule | Immune modulation | 99.44 | 100.00 | WP_011226325 |
| LMMGOCDP_29 | 18509 | 19564 | STU_RS16235 | 0.0 | Capsule | Immune modulation | 99.43 | 100.00 | WP_002948022 |
| LMMGOCDP_4 | 141521 | 142282 | srtA | 0.0 | Sortase A | Exoenzyme | 99.21 | 100.00 | - |
| LMMGOCDP_27 | 83651 | 84619 | cbpD | 0.0 | Autolysin | Exoenzyme | 98.76 | 100.00 | WP_082302295 |
| LMMGOCDP_1 | 108619 | 110034 | STER_RS05250 | 0.0 | Capsule | Immune modulation | 98.52 | 100.00 | WP_011681165 |
| LMMGOCDP_1 | 121025 | 121756 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 98.36 | 100.00 | WP_011226048 |
| LMMGOCDP_1 | 187706 | 188494 | cshA | 0.0 | Cell surface hydrophobicity proteins | Adherence | 98.36 | 99.75 | - |
| LMMGOCDP_1 | 121025 | 121756 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 98.09 | 100.00 | WP_011681176 |
| LMMGOCDP_1 | 121025 | 121756 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 97.68 | 100.00 | WP_011227248 |
| LMMGOCDP_1 | 121757 | 123217 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 97.54 | 100.00 | WP_011681177 |
| LMMGOCDP_29 | 24805 | 26076 | STU_RS16265 | 0.0 | Capsule | Immune modulation | 97.48 | 99.76 | WP_011226331 |
| LMMGOCDP_1 | 119574 | 120314 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 97.30 | 100.00 | WP_011226046 |
| LMMGOCDP_1 | 119574 | 120314 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 96.90 | 100.00 | WP_011681174 |
| LMMGOCDP_1 | 119579 | 120314 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 96.33 | 98.13 | WP_011227246 |
| LMMGOCDP_1 | 121757 | 123217 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 96.23 | 100.21 | WP_011226049 |
| LMMGOCDP_1 | 118150 | 119517 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 95.47 | 100.00 | WP_011226045 |
| LMMGOCDP_1 | 121757 | 123217 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 95.41 | 100.21 | WP_041827043 |
| LMMGOCDP_1 | 120324 | 121016 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 95.40 | 99.86 | WP_011227247 |
| LMMGOCDP_1 | 120324 | 121016 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 95.40 | 99.86 | WP_011226047 |
| LMMGOCDP_1 | 118152 | 119517 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 94.22 | 99.85 | WP_011681173 |
| LMMGOCDP_1 | 120324 | 121016 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 89.47 | 100.00 | WP_011681175 |
| LMMGOCDP_30 | 35734 | 37037 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.09 | 99.54 | WP_000022832 |
| LMMGOCDP_8 | 1728 | 2738 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 86.44 | 99.41 | WP_002986042 |
| LMMGOCDP_28 | 60807 | 62090 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.73 | 99.77 | WP_000107753 |
| LMMGOCDP_23 | 21399 | 22445 | 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 |
|---|---|---|---|---|---|---|---|---|
| LMMGOCDP_4 | 138834 | 137851 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 94.82 | 100.00 | AAK75326 |
| LMMGOCDP_36 | 13785 | 12712 | MntE | 0.0 | manganese homeostasis | 94.41 | 99.72 | ABF32167 |
| LMMGOCDP_35 | 85024 | 87327 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 92.97 | 99.22 | AAK74619 |
| LMMGOCDP_12 | 50138 | 49170 | spr0084 | 0.0 | pathogenitcity related | 92.57 | 98.48 | AAK98888 |
| LMMGOCDP_7 | 11361 | 9115 | metE | 0.0 | methionine biosynthesis enzymes | 91.99 | 100.00 | AAK74738 |
| LMMGOCDP_4 | 68938 | 67457 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 91.50 | 100.00 | ABJ54480 |
| LMMGOCDP_34 | 40605 | 41597 | recA | 0.0 | DNA recombination and repair | 91.24 | 85.31 | AAL00560 |
| LMMGOCDP_34 | 4494 | 5465 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 90.12 | 100.00 | ABF36968 |
| LMMGOCDP_29 | 77988 | 76837 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.32 | 99.74 | AAL00050 |
| LMMGOCDP_29 | 43020 | 41032 | uvrB | 0.0 | excinuclease ABC, B subunit | 88.84 | 100.00 | AE014259_2 |
| LMMGOCDP_4 | 155055 | 156785 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 87.87 | 100.00 | AAK34199 |
| LMMGOCDP_16 | 27059 | 28537 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.42 | 100.00 | ADE32434 |
| LMMGOCDP_16 | 42248 | 44140 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 86.05 | 98.90 | ABP91129 |
| LMMGOCDP_30 | 35734 | 37035 | Eno | 0.0 | enolase | 85.98 | 99.77 | ABP90468 |
| LMMGOCDP_7 | 6190 | 7899 | PGM | 0.0 | phosphoglucomutase | 83.89 | 99.65 | ACH87041 |
| LMMGOCDP_5 | 17723 | 18733 | pdh | 0.0 | pyruvate dehydrogenase | 82.79 | 99.70 | ABP91006 |
| LMMGOCDP_1 | 41240 | 39879 | mnmE | 0.0 | central tRNA-modifying GTPase | 81.80 | 99.56 | ABP90420 |
| LMMGOCDP_16 | 123216 | 125108 | PepO | 0.0 | endopeptidase | 80.19 | 100.00 | ABF32980 |
| LMMGOCDP_30 | 21307 | 22197 | bglB | 1.20e-179 | putative phospho--glucosidase | 88.55 | 99.66 | AAK33487 |
| LMMGOCDP_32 | 41241 | 42176 | SP_0676 | 2.09e-169 | transcription facot | 81.73 | 96.89 | AAK74821 |
| LMMGOCDP_7 | 8923 | 8066 | metF | 4.31e-166 | methionine biosynthesis enzymes | 86.01 | 99.31 | AAK74739 |
| LMMGOCDP_1 | 160021 | 159317 | covR | 4.48e-132 | responder protein | 85.53 | 100.00 | AAK71319 |
| LMMGOCDP_4 | 87906 | 88577 | rr01 | 4.71e-124 | response regulator | 83.04 | 99.56 | CAB54566 |
| LMMGOCDP_1 | 160021 | 159317 | walR | 1.89e-122 | DNA-binding response regulator | 82.13 | 100.00 | ANC99504 |
| LMMGOCDP_7 | 2236 | 1568 | CiaR | 8.79e-120 | two-component response regulator | 84.75 | 99.55 | AAK74935 |
| LMMGOCDP_31 | 94672 | 95358 | CovR | 5.75e-119 | serves to repress GAS virulence factor-encoding genes | 80.79 | 100.00 | ACE75886 |
| LMMGOCDP_7 | 2236 | 1565 | ciaR | 9.53e-118 | two component system response regulator | 82.59 | 99.12 | AIK75708 |
| LMMGOCDP_34 | 41894 | 42289 | SpxA2 | 8.50e-76 | transcriptional regulator | 90.91 | 100.00 | ERL21461 |
| LMMGOCDP_1 | 52599 | 53000 | SpxA1 | 3.85e-67 | transcriptional regulator | 80.60 | 100.00 | ERL19273 |
| LMMGOCDP_38 | 13115 | 13402 | spr0479 | 2.95e-49 | essential gene | 86.46 | 98.97 | AAK99283 |
| LMMGOCDP_27 | 125503 | 125757 | spr1327 | 1.37e-44 | essential gene | 94.12 | 100.00 | AAL00131 |
| LMMGOCDP_16 | 75892 | 75629 | spr0175 | 6.63e-42 | pathogenitcity related | 84.09 | 100.00 | AAK98979 |
| LMMGOCDP_16 | 75065 | 74799 | spr0177 | 1.17e-33 | essential gene | 84.27 | 88.12 | AAK98981 |
| LMMGOCDP_28 | 60649 | 60149 | RopE (M5005_Spy_1611) | 1.81e-76 | probable DNA-directed RNA polymerase subunit delta | 81.44 | 87.43 | AAK34603 |
| LMMGOCDP_35 | 85024 | 87321 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 82.94 | 98.08 | MYN69560 |
| LMMGOCDP_16 | 137691 | 138710 | 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 |
|---|---|---|---|
| LMMGOCDP_1 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_2 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_3 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_4 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_5 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_6 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_7 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_8 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_9 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_10 | 1.0 | 0.0 | 1.0 |
| LMMGOCDP_12 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_13 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_14 | 1.0 | 0.0 | 1.0 |
| LMMGOCDP_15 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_16 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_17 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_18 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_19 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_20 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_23 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_27 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_28 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_29 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_30 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_31 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_32 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_33 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_34 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_35 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_36 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_37 | 0.0 | 1.0 | 0.0 |
| LMMGOCDP_38 | 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)