Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 20 | 35 | 40.31 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| EHLLFDCL_4 | 18721 | 19572 | rfbD | 0.0 | Capsule | Immune modulation | 95.31 | 100.00 | WP_014621820 |
| EHLLFDCL_22 | 25842 | 26573 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 94.81 | 100.00 | WP_011681176 |
| EHLLFDCL_22 | 25842 | 26573 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 94.54 | 100.00 | WP_011226048 |
| EHLLFDCL_22 | 25842 | 26573 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 94.13 | 100.00 | WP_011227248 |
| EHLLFDCL_4 | 24900 | 26656 | STU_RS16230 | 0.0 | Capsule | Immune modulation | 92.94 | 98.43 | WP_011226325 |
| EHLLFDCL_4 | 20894 | 21850 | STU_RS16250 | 0.0 | Capsule | Immune modulation | 92.48 | 100.00 | WP_011226328 |
| EHLLFDCL_4 | 21834 | 22643 | STU_RS16245 | 0.0 | Capsule | Immune modulation | 92.23 | 99.88 | WP_002948020 |
| EHLLFDCL_4 | 22643 | 23848 | STU_RS16240 | 0.0 | Capsule | Immune modulation | 92.12 | 100.00 | WP_011226326 |
| EHLLFDCL_4 | 19749 | 20897 | STU_RS16255 | 0.0 | Capsule | Immune modulation | 91.56 | 99.91 | WP_041828290 |
| EHLLFDCL_4 | 23869 | 24903 | STU_RS16235 | 0.0 | Capsule | Immune modulation | 91.10 | 99.15 | WP_002948022 |
| EHLLFDCL_5 | 144715 | 145308 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 91.08 | 100.00 | WP_011226149 |
| EHLLFDCL_22 | 26574 | 28034 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 90.92 | 99.86 | WP_011681177 |
| EHLLFDCL_5 | 144715 | 145308 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 90.91 | 100.00 | WP_011226149 |
| EHLLFDCL_5 | 144715 | 145308 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 90.91 | 100.00 | WP_011226149 |
| EHLLFDCL_22 | 26574 | 28034 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 90.78 | 100.00 | WP_011226049 |
| EHLLFDCL_6 | 76730 | 78388 | fbp54 | 0.0 | FBPs | Adherence | 90.54 | 99.94 | WP_011227179 |
| EHLLFDCL_22 | 26574 | 28034 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 89.97 | 100.00 | WP_041827043 |
| EHLLFDCL_15 | 38994 | 39899 | cbpD | 0.0 | Autolysin | Exoenzyme | 89.96 | 93.50 | WP_082302295 |
| EHLLFDCL_22 | 25141 | 25833 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 89.90 | 100.00 | WP_011226047 |
| EHLLFDCL_22 | 25141 | 25833 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 89.61 | 100.00 | WP_011227247 |
| EHLLFDCL_22 | 25141 | 25833 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 89.47 | 100.00 | WP_011681175 |
| EHLLFDCL_3 | 131856 | 133159 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.17 | 99.54 | WP_000022832 |
| EHLLFDCL_27 | 172 | 1185 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 85.67 | 99.90 | WP_002986042 |
| EHLLFDCL_16 | 18456 | 19217 | srtA | 0.0 | Sortase A | Exoenzyme | 83.88 | 99.87 | - |
| EHLLFDCL_5 | 143399 | 144445 | rfbB | 0.0 | Capsule | Immune modulation | 83.49 | 99.90 | WP_002263087 |
| EHLLFDCL_26 | 12022 | 13305 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.61 | 99.61 | WP_000107753 |
| EHLLFDCL_5 | 145308 | 146177 | rfbA | 0.0 | Capsule | Immune modulation | 80.28 | 99.77 | WP_002904719 |
| EHLLFDCL_22 | 24461 | 25131 | STU_RS14635 | 1.68e-148 | Capsule | Immune modulation | 80.98 | 90.28 | WP_011226046 |
| EHLLFDCL_22 | 24461 | 25131 | STER_RS05305 | 7.81e-147 | Capsule | Immune modulation | 80.83 | 90.28 | WP_011681174 |
| EHLLFDCL_22 | 24529 | 25131 | STR_RS05250 | 7.92e-137 | Capsule | Immune modulation | 81.46 | 80.13 | WP_011227246 |
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 |
|---|---|---|---|---|---|---|---|---|
| EHLLFDCL_16 | 21906 | 22889 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 96.95 | 100.00 | AAK75326 |
| EHLLFDCL_16 | 10322 | 9249 | MntE | 0.0 | manganese homeostasis | 96.09 | 99.72 | ABF32167 |
| EHLLFDCL_8 | 92669 | 90363 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 94.28 | 99.22 | AAK74619 |
| EHLLFDCL_2 | 103928 | 105409 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 92.92 | 100.00 | ABJ54480 |
| EHLLFDCL_12 | 10493 | 12739 | metE | 0.0 | methionine biosynthesis enzymes | 92.79 | 100.00 | AAK74738 |
| EHLLFDCL_1 | 206857 | 207825 | spr0084 | 0.0 | pathogenitcity related | 92.57 | 98.48 | AAK98888 |
| EHLLFDCL_17 | 4398 | 5369 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 91.67 | 100.00 | ABF36968 |
| EHLLFDCL_2 | 7244 | 771 | PrtA | 0.0 | serine protease | 91.39 | 100.61 | ABJ55268 |
| EHLLFDCL_28 | 1979 | 249 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 89.78 | 100.00 | AAK34199 |
| EHLLFDCL_4 | 5089 | 7077 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.74 | 100.00 | AE014259_2 |
| EHLLFDCL_1 | 130713 | 131864 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.58 | 99.74 | AAL00050 |
| EHLLFDCL_10 | 71119 | 69641 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.83 | 100.00 | ADE32434 |
| EHLLFDCL_3 | 133159 | 131858 | Eno | 0.0 | enolase | 86.44 | 99.77 | ABP90468 |
| EHLLFDCL_10 | 55339 | 53447 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.42 | 98.90 | ABP91129 |
| EHLLFDCL_17 | 39546 | 40637 | recA | 0.0 | DNA recombination and repair | 84.91 | 95.36 | AAL00560 |
| EHLLFDCL_12 | 15657 | 13948 | PGM | 0.0 | phosphoglucomutase | 84.76 | 99.65 | ACH87041 |
| EHLLFDCL_6 | 92543 | 91182 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.89 | 99.56 | ABP90420 |
| EHLLFDCL_19 | 28295 | 29305 | pdh | 0.0 | pyruvate dehydrogenase | 82.79 | 99.70 | ABP91006 |
| EHLLFDCL_3 | 147569 | 146679 | bglB | 2.00e-177 | putative phospho--glucosidase | 87.20 | 99.66 | AAK33487 |
| EHLLFDCL_12 | 12929 | 13786 | metF | 2.15e-170 | methionine biosynthesis enzymes | 87.76 | 99.31 | AAK74739 |
| EHLLFDCL_12 | 57201 | 56263 | SP_0676 | 4.45e-169 | transcription facot | 81.47 | 97.20 | AAK74821 |
| EHLLFDCL_3 | 28261 | 29118 | mtsA | 2.25e-151 | substrate-binding lipoprotein of manganese transporter | 80.14 | 92.86 | AIK76191 |
| EHLLFDCL_14 | 32222 | 31518 | covR | 3.94e-128 | responder protein | 85.96 | 100.00 | AAK71319 |
| EHLLFDCL_2 | 31309 | 30638 | rr01 | 4.21e-127 | response regulator | 84.82 | 99.56 | CAB54566 |
| EHLLFDCL_12 | 20322 | 20993 | ciaR | 6.25e-126 | two component system response regulator | 86.16 | 99.12 | AIK75708 |
| EHLLFDCL_12 | 20322 | 20990 | CiaR | 1.16e-125 | two-component response regulator | 87.44 | 99.55 | AAK74935 |
| EHLLFDCL_13 | 36523 | 35837 | CovR | 4.52e-121 | serves to repress GAS virulence factor-encoding genes | 82.10 | 100.00 | ACE75886 |
| EHLLFDCL_14 | 32222 | 31518 | walR | 2.37e-120 | DNA-binding response regulator | 81.70 | 100.00 | ANC99504 |
| EHLLFDCL_37 | 256 | 651 | SpxA2 | 3.83e-84 | transcriptional regulator | 91.67 | 100.00 | ERL21461 |
| EHLLFDCL_6 | 104001 | 104402 | SpxA1 | 8.36e-70 | transcriptional regulator | 82.09 | 100.00 | ERL19273 |
| EHLLFDCL_18 | 6268 | 5855 | GrpE | 3.04e-68 | protein grpE | 81.88 | 80.59 | ABP89267 |
| EHLLFDCL_13 | 13318 | 13031 | spr0479 | 1.43e-48 | essential gene | 85.42 | 98.97 | AAK99283 |
| EHLLFDCL_1 | 173196 | 173450 | spr1327 | 7.74e-46 | essential gene | 94.12 | 100.00 | AAL00131 |
| EHLLFDCL_10 | 12573 | 12836 | spr0175 | 4.05e-43 | pathogenitcity related | 85.23 | 100.00 | AAK98979 |
| EHLLFDCL_10 | 13399 | 13665 | spr0177 | 5.03e-42 | essential gene | 83.15 | 88.12 | AAK98981 |
| EHLLFDCL_26 | 11855 | 11364 | RopE (M5005_Spy_1611) | 7.22e-74 | probable DNA-directed RNA polymerase subunit delta | 82.93 | 85.86 | AAK34603 |
| EHLLFDCL_8 | 92669 | 90369 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 82.97 | 98.08 | MYN69560 |
| EHLLFDCL_11 | 27530 | 26511 | ilvC (SPD_0406) | 0.0 | ketol-acid reductoisomerase (NADP(+)) | 85.88 | 100.00 | ABJ55451 |
| EHLLFDCL_6 | 54114 | 54653 | pnuC | 4.87e-96 | NAD salvage pathway importer | 85.00 | 66.91 | AAK75931 |
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 |
|---|---|---|---|
| EHLLFDCL_1 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_2 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_3 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_4 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_5 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_6 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_7 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_8 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_9 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_10 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_11 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_12 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_13 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_14 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_15 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_16 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_17 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_18 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_19 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_20 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_21 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_22 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_23 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_24 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_25 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_26 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_27 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_28 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_32 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_33 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_34 | 1.0 | 0.0 | 1.0 |
| EHLLFDCL_35 | 1.0 | 0.0 | 1.0 |
| EHLLFDCL_36 | 0.0 | 1.0 | 0.0 |
| EHLLFDCL_37 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| EHLLFDCL_5 | 27296 | 70722 | False | Siphoviridae | VOG9265, VOG4649, VOG0054, VOG0641, VOG0648, VOG0647, VOG4599, VOG4605, VOG3636, VOG0800, VOG0725, VOG0799, VOG0799, VOG0724, VOG5660, VOG0723, VOG4713, VOG3435, VOG1887, VOG3434, VOG4564, VOG0720, VOG0796, VOG0198, VOG0658, VOG5562, VOG0044, VOG7416, VOG0657, VOG4567, VOG0152, VOG0656, VOG7265, VOG4693, VOG7264, VOG4548, VOG7263, VOG5280, VOG0322, VOG0083, VOG11069, VOG0651, VOG4555, VOG3478, VOG6179, VOG6425, VOG3622, VOG0743 |
Phigaro v2.4.0 (Database: Jan. 2024 release)