Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 22 | 27 | 34.83 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| LCKEMOFJ_1 | 1348819 | 1349535 | STER_RS07085 | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011681442 |
| LCKEMOFJ_1 | 1349536 | 1350504 | STER_RS07090 | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011681443 |
| LCKEMOFJ_1 | 1120995 | 1121588 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011226149 |
| LCKEMOFJ_1 | 1347697 | 1348473 | STER_RS07075 | 0.0 | Capsule | Immune modulation | 99.87 | 100.00 | WP_011681440 |
| LCKEMOFJ_1 | 1120995 | 1121588 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | WP_011226149 |
| LCKEMOFJ_1 | 1120995 | 1121588 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | WP_011226149 |
| LCKEMOFJ_1 | 1350522 | 1351499 | STER_RS07095 | 0.0 | Capsule | Immune modulation | 99.39 | 100.00 | WP_011681444 |
| LCKEMOFJ_1 | 43419 | 44258 | cbpD | 0.0 | Autolysin | Exoenzyme | 99.29 | 100.00 | WP_011226733 |
| LCKEMOFJ_1 | 1121588 | 1122457 | rfbA | 0.0 | Capsule | Immune modulation | 99.19 | 100.00 | WP_011681286 |
| LCKEMOFJ_1 | 988094 | 988825 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 98.91 | 100.00 | WP_011681176 |
| LCKEMOFJ_1 | 988826 | 990286 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 98.91 | 100.00 | WP_011681177 |
| LCKEMOFJ_1 | 883912 | 885570 | fbp54 | 0.0 | FBPs | Adherence | 98.37 | 100.00 | WP_011227179 |
| LCKEMOFJ_1 | 1352873 | 1353724 | rfbD | 0.0 | Capsule | Immune modulation | 98.36 | 100.00 | WP_014621820 |
| LCKEMOFJ_1 | 1066031 | 1066820 | cshA | 0.0 | Cell surface hydrophobicity proteins | Adherence | 98.36 | 99.87 | - |
| LCKEMOFJ_1 | 988094 | 988825 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 98.09 | 100.00 | WP_011226048 |
| LCKEMOFJ_1 | 988094 | 988825 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 97.95 | 100.00 | WP_011227248 |
| LCKEMOFJ_1 | 1159238 | 1159999 | srtA | 0.0 | Sortase A | Exoenzyme | 97.64 | 100.00 | - |
| LCKEMOFJ_1 | 988826 | 990286 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 97.33 | 100.21 | WP_011226049 |
| LCKEMOFJ_1 | 988826 | 990286 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 96.78 | 100.21 | WP_041827043 |
| LCKEMOFJ_1 | 1351496 | 1352754 | STER_RS07100 | 0.0 | Capsule | Immune modulation | 96.51 | 99.92 | WP_011681445 |
| LCKEMOFJ_1 | 987393 | 988085 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 93.22 | 100.00 | WP_011226047 |
| LCKEMOFJ_1 | 987393 | 988085 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 92.93 | 100.00 | WP_011227247 |
| LCKEMOFJ_1 | 986643 | 987383 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 92.44 | 100.00 | WP_011226046 |
| LCKEMOFJ_1 | 986643 | 987383 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 92.31 | 100.00 | WP_011681174 |
| LCKEMOFJ_1 | 986648 | 987383 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 91.58 | 98.13 | WP_011227246 |
| LCKEMOFJ_1 | 622853 | 624156 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 87.41 | 99.54 | WP_000022832 |
| LCKEMOFJ_1 | 987393 | 988085 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 87.01 | 100.00 | WP_011681175 |
| LCKEMOFJ_1 | 1643978 | 1644988 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 86.66 | 99.90 | WP_002986042 |
| LCKEMOFJ_1 | 985222 | 986587 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 84.28 | 99.71 | WP_011681173 |
| LCKEMOFJ_1 | 985220 | 986587 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 84.17 | 99.78 | WP_011226045 |
| LCKEMOFJ_1 | 1119520 | 1120566 | rfbB | 0.0 | Capsule | Immune modulation | 81.03 | 99.81 | WP_009659423 |
| LCKEMOFJ_1 | 163895 | 165178 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.99 | 99.61 | WP_000107753 |
| LCKEMOFJ_1 | 976509 | 977092 | SPD_RS01775 | 5.10e-150 | Capsule | Immune modulation | 83.42 | 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 |
|---|---|---|---|---|---|---|---|---|
| LCKEMOFJ_1 | 754696 | 755769 | MntE | 0.0 | manganese homeostasis | 94.41 | 99.72 | ABF32167 |
| LCKEMOFJ_1 | 1162686 | 1163669 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 94.21 | 100.00 | AAK75326 |
| LCKEMOFJ_1 | 1516922 | 1519225 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 92.97 | 99.22 | AAK74619 |
| LCKEMOFJ_1 | 539212 | 540180 | spr0084 | 0.0 | pathogenitcity related | 91.95 | 98.48 | AAK98888 |
| LCKEMOFJ_1 | 774563 | 776809 | metE | 0.0 | methionine biosynthesis enzymes | 91.86 | 100.00 | AAK74738 |
| LCKEMOFJ_1 | 1251484 | 1252965 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 91.70 | 100.00 | ABJ54480 |
| LCKEMOFJ_1 | 26938 | 27909 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 90.12 | 100.00 | ABF36968 |
| LCKEMOFJ_1 | 1367088 | 1365100 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.14 | 100.00 | AE014259_2 |
| LCKEMOFJ_1 | 1402070 | 1400919 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.06 | 99.74 | AAL00050 |
| LCKEMOFJ_1 | 1146484 | 1144754 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 87.87 | 100.00 | AAK34199 |
| LCKEMOFJ_1 | 1860082 | 1858604 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.22 | 100.00 | ADE32434 |
| LCKEMOFJ_1 | 622853 | 624154 | Eno | 0.0 | enolase | 85.75 | 99.77 | ABP90468 |
| LCKEMOFJ_1 | 80943 | 82034 | recA | 0.0 | DNA recombination and repair | 85.44 | 95.10 | AAL00560 |
| LCKEMOFJ_1 | 1845268 | 1843376 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.26 | 98.90 | ABP91129 |
| LCKEMOFJ_1 | 779734 | 778025 | PGM | 0.0 | phosphoglucomutase | 83.89 | 99.65 | ACH87041 |
| LCKEMOFJ_1 | 1687083 | 1688093 | pdh | 0.0 | pyruvate dehydrogenase | 82.20 | 99.70 | ABP91006 |
| LCKEMOFJ_1 | 910113 | 908752 | mnmE | 0.0 | central tRNA-modifying GTPase | 81.36 | 99.56 | ABP90420 |
| LCKEMOFJ_1 | 608414 | 609304 | bglB | 1.34e-178 | putative phospho--glucosidase | 88.89 | 99.66 | AAK33487 |
| LCKEMOFJ_1 | 831268 | 830330 | SP_0676 | 1.13e-166 | transcription facot | 81.15 | 97.20 | AAK74821 |
| LCKEMOFJ_1 | 777001 | 777858 | metF | 5.32e-164 | methionine biosynthesis enzymes | 85.66 | 99.31 | AAK74739 |
| LCKEMOFJ_1 | 1026319 | 1025615 | covR | 1.15e-128 | responder protein | 84.25 | 100.00 | AAK71319 |
| LCKEMOFJ_1 | 1213627 | 1212956 | rr01 | 1.82e-126 | response regulator | 84.82 | 99.56 | CAB54566 |
| LCKEMOFJ_1 | 783747 | 784415 | CiaR | 5.70e-124 | two-component response regulator | 87.00 | 99.55 | AAK74935 |
| LCKEMOFJ_1 | 783747 | 784418 | ciaR | 2.52e-122 | two component system response regulator | 85.27 | 99.12 | AIK75708 |
| LCKEMOFJ_1 | 1026319 | 1025615 | walR | 5.55e-120 | DNA-binding response regulator | 81.28 | 100.00 | ANC99504 |
| LCKEMOFJ_1 | 309982 | 310668 | CovR | 8.87e-118 | serves to repress GAS virulence factor-encoding genes | 81.22 | 100.00 | ACE75886 |
| LCKEMOFJ_1 | 82217 | 82612 | SpxA2 | 1.95e-72 | transcriptional regulator | 89.39 | 100.00 | ERL21461 |
| LCKEMOFJ_1 | 165336 | 165836 | RopE (M5005_Spy_1611) | 3.58e-75 | probable DNA-directed RNA polymerase subunit delta | 82.04 | 87.43 | AAK34603 |
| LCKEMOFJ_1 | 1516913 | 1519219 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 82.77 | 98.46 | MYN69560 |
| LCKEMOFJ_1 | 1722968 | 1721949 | 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. |
|---|---|---|---|---|---|---|
| LCKEMOFJ_2 | 1 | 948 | rep37 | 948 / 945 | 90.93 | HM050421 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| LCKEMOFJ_1 | 0.0 | 1.0 | 0.0 |
| LCKEMOFJ_2 | 1.0 | 0.0 | 1.0 |
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)