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. |
|---|---|---|---|---|---|---|---|---|---|
| LKFECMPP_15 | 8899 | 9492 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011226149 |
| LKFECMPP_15 | 9492 | 10361 | rfbA | 0.0 | Capsule | Immune modulation | 99.89 | 100.00 | WP_011681286 |
| LKFECMPP_8 | 2185 | 2994 | STU_RS16245 | 0.0 | Capsule | Immune modulation | 99.88 | 100.00 | WP_002948020 |
| LKFECMPP_15 | 8899 | 9492 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | WP_011226149 |
| LKFECMPP_8 | 100 | 1248 | STU_RS16255 | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | WP_041828290 |
| LKFECMPP_15 | 8899 | 9492 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | WP_011226149 |
| LKFECMPP_12 | 1014 | 2157 | cshA | 0.0 | Cell surface hydrophobicity proteins | Adherence | 99.56 | 100.00 | - |
| LKFECMPP_8 | 5271 | 7055 | STU_RS16230 | 0.0 | Capsule | Immune modulation | 99.55 | 100.00 | WP_011226325 |
| LKFECMPP_6 | 65544 | 67202 | fbp54 | 0.0 | FBPs | Adherence | 99.52 | 100.00 | WP_011227179 |
| LKFECMPP_8 | 4219 | 5274 | STU_RS16235 | 0.0 | Capsule | Immune modulation | 99.43 | 100.00 | WP_002948022 |
| LKFECMPP_8 | 2994 | 4199 | STU_RS16240 | 0.0 | Capsule | Immune modulation | 99.34 | 100.00 | WP_011226326 |
| LKFECMPP_3 | 150576 | 151307 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 99.32 | 100.00 | WP_011681176 |
| LKFECMPP_8 | 1245 | 2201 | STU_RS16250 | 0.0 | Capsule | Immune modulation | 99.16 | 100.00 | WP_011226328 |
| LKFECMPP_27 | 1599 | 2561 | STU_RS16260 | 0.0 | Capsule | Immune modulation | 99.06 | 95.25 | WP_011226330 |
| LKFECMPP_3 | 150576 | 151307 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 98.77 | 100.00 | WP_011226048 |
| LKFECMPP_10 | 19017 | 19985 | cbpD | 0.0 | Autolysin | Exoenzyme | 98.76 | 100.00 | WP_082302295 |
| LKFECMPP_3 | 150576 | 151307 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 98.63 | 100.00 | WP_011227248 |
| LKFECMPP_27 | 4936 | 5787 | rfbD | 0.0 | Capsule | Immune modulation | 98.47 | 100.00 | WP_014621820 |
| LKFECMPP_15 | 44262 | 45023 | srtA | 0.0 | Sortase A | Exoenzyme | 97.77 | 100.00 | - |
| LKFECMPP_3 | 149115 | 150575 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 97.67 | 100.00 | WP_011681177 |
| LKFECMPP_27 | 2561 | 3835 | STU_RS16265 | 0.0 | Capsule | Immune modulation | 97.02 | 100.00 | WP_011226331 |
| LKFECMPP_3 | 149115 | 150575 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 96.51 | 100.21 | WP_011226049 |
| LKFECMPP_3 | 152018 | 152758 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 95.82 | 100.00 | WP_011681174 |
| LKFECMPP_3 | 149115 | 150575 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 95.69 | 100.21 | WP_041827043 |
| LKFECMPP_3 | 152018 | 152758 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 95.41 | 100.00 | WP_011226046 |
| LKFECMPP_3 | 151316 | 152008 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 95.24 | 100.00 | WP_011226047 |
| LKFECMPP_3 | 152018 | 152753 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 95.11 | 98.13 | WP_011227246 |
| LKFECMPP_3 | 151316 | 152008 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 94.95 | 100.00 | WP_011227247 |
| LKFECMPP_3 | 152815 | 154182 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 94.59 | 99.93 | WP_011226045 |
| LKFECMPP_3 | 152815 | 154180 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 94.22 | 99.71 | WP_011681173 |
| LKFECMPP_3 | 151316 | 152008 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 92.50 | 100.00 | WP_011681175 |
| LKFECMPP_14 | 39130 | 40433 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.10 | 99.46 | WP_000022832 |
| LKFECMPP_23 | 14236 | 15246 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 87.36 | 99.80 | WP_002986042 |
| LKFECMPP_2 | 5313 | 6596 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.65 | 99.77 | WP_000107753 |
| LKFECMPP_15 | 7424 | 8470 | rfbB | 0.0 | Capsule | Immune modulation | 80.61 | 100.00 | WP_009659423 |
| LKFECMPP_25 | 6468 | 7051 | SPD_RS01775 | 4.87e-149 | 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 |
|---|---|---|---|---|---|---|---|---|
| LKFECMPP_15 | 47710 | 48693 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 94.82 | 100.00 | AAK75326 |
| LKFECMPP_7 | 61474 | 60401 | MntE | 0.0 | manganese homeostasis | 94.41 | 99.72 | ABF32167 |
| LKFECMPP_1 | 126304 | 128607 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 92.97 | 99.22 | AAK74619 |
| LKFECMPP_12 | 20262 | 21230 | spr0084 | 0.0 | pathogenitcity related | 92.57 | 98.48 | AAK98888 |
| LKFECMPP_5 | 78434 | 79915 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 92.31 | 100.00 | ABJ54480 |
| LKFECMPP_7 | 40946 | 38700 | metE | 0.0 | methionine biosynthesis enzymes | 91.99 | 100.00 | AAK74738 |
| LKFECMPP_16 | 1885 | 887 | recA | 0.0 | DNA recombination and repair | 91.29 | 85.82 | AAL00560 |
| LKFECMPP_16 | 38002 | 37031 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 90.12 | 100.00 | ABF36968 |
| LKFECMPP_21 | 11730 | 9742 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.44 | 100.00 | AE014259_2 |
| LKFECMPP_1 | 4871 | 3720 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.32 | 99.74 | AAL00050 |
| LKFECMPP_15 | 31512 | 29782 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 87.69 | 100.00 | AAK34199 |
| LKFECMPP_18 | 25684 | 24206 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.63 | 100.00 | ADE32434 |
| LKFECMPP_14 | 39130 | 40431 | Eno | 0.0 | enolase | 86.21 | 99.77 | ABP90468 |
| LKFECMPP_18 | 10949 | 9057 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.74 | 98.90 | ABP91129 |
| LKFECMPP_7 | 35775 | 37484 | PGM | 0.0 | phosphoglucomutase | 83.89 | 99.65 | ACH87041 |
| LKFECMPP_4 | 89783 | 88773 | pdh | 0.0 | pyruvate dehydrogenase | 83.09 | 99.70 | ABP91006 |
| LKFECMPP_9 | 76486 | 77847 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.02 | 99.56 | ABP90420 |
| LKFECMPP_4 | 39453 | 41345 | PepO | 0.0 | endopeptidase | 80.19 | 100.00 | ABF32980 |
| LKFECMPP_14 | 24694 | 25584 | bglB | 3.90e-180 | putative phospho--glucosidase | 88.89 | 99.66 | AAK33487 |
| LKFECMPP_6 | 11710 | 10772 | SP_0676 | 1.14e-168 | transcription facot | 81.15 | 97.20 | AAK74821 |
| LKFECMPP_7 | 38508 | 37651 | metF | 7.31e-166 | methionine biosynthesis enzymes | 86.36 | 99.31 | AAK74739 |
| LKFECMPP_3 | 112306 | 113010 | covR | 3.70e-132 | responder protein | 85.53 | 100.00 | AAK71319 |
| LKFECMPP_5 | 50342 | 49671 | rr01 | 1.47e-125 | response regulator | 83.93 | 99.56 | CAB54566 |
| LKFECMPP_3 | 112306 | 113010 | walR | 1.56e-122 | DNA-binding response regulator | 82.13 | 100.00 | ANC99504 |
| LKFECMPP_2 | 158283 | 158969 | CovR | 9.01e-119 | serves to repress GAS virulence factor-encoding genes | 80.79 | 100.00 | ACE75886 |
| LKFECMPP_7 | 31821 | 31153 | CiaR | 1.14e-118 | two-component response regulator | 84.31 | 99.55 | AAK74935 |
| LKFECMPP_7 | 31821 | 31150 | ciaR | 1.32e-116 | two component system response regulator | 82.14 | 99.12 | AIK75708 |
| LKFECMPP_16 | 611 | 237 | SpxA2 | 2.55e-71 | transcriptional regulator | 91.20 | 94.70 | ERL21461 |
| LKFECMPP_9 | 65068 | 64667 | SpxA1 | 1.58e-67 | transcriptional regulator | 80.60 | 100.00 | ERL19273 |
| LKFECMPP_20 | 21033 | 20746 | spr0479 | 2.59e-49 | essential gene | 86.46 | 98.97 | AAK99283 |
| LKFECMPP_10 | 61635 | 61889 | spr1327 | 9.89e-46 | essential gene | 95.29 | 100.00 | AAL00131 |
| LKFECMPP_19 | 13842 | 14105 | spr0175 | 1.38e-42 | pathogenitcity related | 84.09 | 100.00 | AAK98979 |
| LKFECMPP_19 | 14669 | 14935 | spr0177 | 3.02e-34 | essential gene | 84.27 | 88.12 | AAK98981 |
| LKFECMPP_2 | 6754 | 7254 | RopE (M5005_Spy_1611) | 4.41e-76 | probable DNA-directed RNA polymerase subunit delta | 81.44 | 87.43 | AAK34603 |
| LKFECMPP_1 | 126304 | 128601 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 82.94 | 98.08 | MYN69560 |
| LKFECMPP_4 | 53925 | 54944 | 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 |
|---|---|---|---|
| LKFECMPP_1 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_2 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_3 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_4 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_5 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_6 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_7 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_8 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_9 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_10 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_11 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_12 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_13 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_14 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_15 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_16 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_17 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_18 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_19 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_20 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_21 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_22 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_23 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_24 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_25 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_26 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_27 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_28 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_29 | 1.0 | 0.0 | 1.0 |
| LKFECMPP_31 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_32 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_33 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_34 | 1.0 | 0.0 | 1.0 |
| LKFECMPP_35 | 0.0 | 1.0 | 0.0 |
| LKFECMPP_36 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| LKFECMPP_3 | 56095 | 96165 | False | Siphoviridae | VOG0275, VOG7656, VOG4602, VOG0743, VOG6495, VOG4552, VOG8337, VOG9408, VOG1563, VOG0650, VOG8482, VOG0651, VOG4566, VOG0189, VOG3430, VOG1309, VOG0685, VOG0226, VOG0638, VOG4693, VOG0655, VOG3468, VOG0656, VOG6414, VOG6140, VOG0152, VOG0152, VOG9667, VOG0198, VOG0796, VOG4544, VOG0720, VOG4564, VOG4555, VOG3434, VOG1887, VOG3435, VOG4713, VOG0723, VOG5660, VOG0724, VOG0799, VOG0725, VOG0800, VOG4545, VOG4605, VOG4599, VOG0647, VOG4782, VOG3298, VOG0641, VOG0054, VOG4649, VOG3299, VOG3300 |
Phigaro v2.4.0 (Database: Jan. 2024 release)