Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 1 | 20 | 27 | 33.62 |
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. |
|---|---|---|---|---|---|---|---|---|
| JDKLEPDP_1 | 145825 | 147765 | tet(S) | ARO:3000192 | tet(S) | 99.84 | 100.78 | L09756.1 |
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. |
|---|---|---|---|---|---|---|---|
| JDKLEPDP_1 | 145840 | 147765 | tet(S) | Doxycycline, Tetracycline, Minocycline | 100.00 | 100.00 | L09756 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| JDKLEPDP_1 | 145840 | 147762 | tet(S) | tetracycline resistance ribosomal protection protein Tet(S) | EXACTX | 100.00 | 100.00 | WP_000691722.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| JDKLEPDP_1 | 1403943 | 1404911 | STER_RS07090 | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011681443 |
| JDKLEPDP_1 | 1194394 | 1194987 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | WP_011226149 |
| JDKLEPDP_1 | 1194394 | 1194987 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | WP_011226149 |
| JDKLEPDP_1 | 1194394 | 1194987 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | WP_011226149 |
| JDKLEPDP_1 | 1194987 | 1195856 | rfbA | 0.0 | Capsule | Immune modulation | 99.42 | 100.00 | WP_011681286 |
| JDKLEPDP_1 | 43622 | 44461 | cbpD | 0.0 | Autolysin | Exoenzyme | 99.41 | 100.00 | WP_011226733 |
| JDKLEPDP_1 | 1404929 | 1405906 | STER_RS07095 | 0.0 | Capsule | Immune modulation | 99.39 | 100.00 | WP_011681444 |
| JDKLEPDP_1 | 936346 | 938004 | fbp54 | 0.0 | FBPs | Adherence | 99.28 | 100.00 | WP_011227179 |
| JDKLEPDP_1 | 1059008 | 1059739 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 99.04 | 100.00 | WP_011681176 |
| JDKLEPDP_1 | 1057557 | 1058297 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 98.78 | 100.00 | WP_011681174 |
| JDKLEPDP_1 | 1059008 | 1059739 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 98.77 | 100.00 | WP_011226048 |
| JDKLEPDP_1 | 1059008 | 1059739 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 98.63 | 100.00 | WP_011227248 |
| JDKLEPDP_1 | 1057557 | 1058297 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 98.38 | 100.00 | WP_011226046 |
| JDKLEPDP_1 | 1403226 | 1403942 | STER_RS07085 | 0.0 | Capsule | Immune modulation | 98.33 | 100.00 | WP_011681442 |
| JDKLEPDP_1 | 1407280 | 1408131 | rfbD | 0.0 | Capsule | Immune modulation | 98.24 | 100.00 | WP_014621820 |
| JDKLEPDP_1 | 1057562 | 1058297 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 98.10 | 98.13 | WP_011227246 |
| JDKLEPDP_1 | 1059740 | 1061200 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 97.95 | 100.00 | WP_011681177 |
| JDKLEPDP_1 | 1402104 | 1402880 | STER_RS07075 | 0.0 | Capsule | Immune modulation | 97.81 | 100.00 | WP_011681440 |
| JDKLEPDP_1 | 1232481 | 1233242 | srtA | 0.0 | Sortase A | Exoenzyme | 97.51 | 100.00 | - |
| JDKLEPDP_1 | 1059740 | 1061200 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 97.06 | 100.21 | WP_011226049 |
| JDKLEPDP_1 | 1058307 | 1058999 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 96.83 | 99.86 | WP_011226047 |
| JDKLEPDP_1 | 1058307 | 1058999 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 96.54 | 100.00 | WP_011227247 |
| JDKLEPDP_1 | 1059740 | 1061200 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 96.44 | 100.21 | WP_041827043 |
| JDKLEPDP_1 | 1405903 | 1407161 | STER_RS07100 | 0.0 | Capsule | Immune modulation | 96.43 | 99.92 | WP_011681445 |
| JDKLEPDP_1 | 1139680 | 1140458 | cshA | 0.0 | Cell surface hydrophobicity proteins | Adherence | 92.81 | 99.37 | - |
| JDKLEPDP_1 | 1058307 | 1058999 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 89.90 | 100.00 | WP_011681175 |
| JDKLEPDP_1 | 667314 | 668617 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 87.33 | 99.54 | WP_000022832 |
| JDKLEPDP_1 | 1734089 | 1735099 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 86.96 | 99.90 | WP_002986042 |
| JDKLEPDP_1 | 1192918 | 1193964 | rfbB | 0.0 | Capsule | Immune modulation | 83.40 | 99.90 | WP_002263087 |
| JDKLEPDP_1 | 177500 | 178783 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.99 | 99.61 | WP_000107753 |
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 |
|---|---|---|---|---|---|---|---|---|
| JDKLEPDP_1 | 800922 | 801995 | MntE | 0.0 | manganese homeostasis | 94.41 | 99.72 | ABF32167 |
| JDKLEPDP_1 | 1235929 | 1236912 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 94.21 | 100.00 | AAK75326 |
| JDKLEPDP_1 | 580448 | 581416 | spr0084 | 0.0 | pathogenitcity related | 93.19 | 98.48 | AAK98888 |
| JDKLEPDP_1 | 1604053 | 1606356 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 92.97 | 99.22 | AAK74619 |
| JDKLEPDP_1 | 1295650 | 1297131 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 91.90 | 100.00 | ABJ54480 |
| JDKLEPDP_1 | 820788 | 823034 | metE | 0.0 | methionine biosynthesis enzymes | 91.86 | 100.00 | AAK74738 |
| JDKLEPDP_1 | 27138 | 28109 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 90.12 | 100.00 | ABF36968 |
| JDKLEPDP_1 | 1450882 | 1448894 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.14 | 100.00 | AE014259_2 |
| JDKLEPDP_1 | 1487718 | 1486567 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.06 | 99.74 | AAL00050 |
| JDKLEPDP_1 | 1219729 | 1217999 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 88.04 | 100.00 | AAK34199 |
| JDKLEPDP_1 | 2015373 | 2013895 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.22 | 100.00 | ADE32434 |
| JDKLEPDP_1 | 667314 | 668615 | Eno | 0.0 | enolase | 85.52 | 99.77 | ABP90468 |
| JDKLEPDP_1 | 64620 | 65711 | recA | 0.0 | DNA recombination and repair | 85.44 | 95.10 | AAL00560 |
| JDKLEPDP_1 | 2000633 | 1998741 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.10 | 98.90 | ABP91129 |
| JDKLEPDP_1 | 825959 | 824250 | PGM | 0.0 | phosphoglucomutase | 83.89 | 99.65 | ACH87041 |
| JDKLEPDP_1 | 1814299 | 1815309 | pdh | 0.0 | pyruvate dehydrogenase | 82.20 | 99.70 | ABP91006 |
| JDKLEPDP_1 | 970480 | 969119 | mnmE | 0.0 | central tRNA-modifying GTPase | 80.92 | 99.56 | ABP90420 |
| JDKLEPDP_1 | 1865283 | 1863391 | PepO | 0.0 | endopeptidase | 80.19 | 100.00 | ABF32980 |
| JDKLEPDP_1 | 652877 | 653767 | bglB | 1.46e-178 | putative phospho--glucosidase | 88.89 | 99.66 | AAK33487 |
| JDKLEPDP_1 | 883417 | 882479 | SP_0676 | 1.22e-166 | transcription facot | 81.15 | 97.20 | AAK74821 |
| JDKLEPDP_1 | 823226 | 824083 | metF | 2.17e-163 | methionine biosynthesis enzymes | 85.66 | 99.31 | AAK74739 |
| JDKLEPDP_1 | 1097184 | 1096480 | covR | 1.44e-128 | responder protein | 84.25 | 100.00 | AAK71319 |
| JDKLEPDP_1 | 1270960 | 1270289 | rr01 | 1.39e-125 | response regulator | 84.38 | 99.56 | CAB54566 |
| JDKLEPDP_1 | 829916 | 830584 | CiaR | 1.72e-123 | two-component response regulator | 86.55 | 99.55 | AAK74935 |
| JDKLEPDP_1 | 829916 | 830587 | ciaR | 4.25e-122 | two component system response regulator | 85.27 | 99.12 | AIK75708 |
| JDKLEPDP_1 | 1097184 | 1096480 | walR | 6.01e-120 | DNA-binding response regulator | 81.28 | 100.00 | ANC99504 |
| JDKLEPDP_1 | 65894 | 66289 | SpxA2 | 2.11e-72 | transcriptional regulator | 89.39 | 100.00 | ERL21461 |
| JDKLEPDP_1 | 178941 | 179441 | RopE (M5005_Spy_1611) | 3.87e-75 | probable DNA-directed RNA polymerase subunit delta | 82.04 | 87.43 | AAK34603 |
| JDKLEPDP_1 | 1604044 | 1606350 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 82.77 | 98.46 | MYN69560 |
| JDKLEPDP_1 | 1850843 | 1849824 | 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 |
|---|---|---|---|
| JDKLEPDP_1 | 0.0 | 1.0 | 0.0 |
| JDKLEPDP_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)