Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 19 | 28 | 33.84 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| LCDJKOIP_1 | 1129112 | 1129705 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | WP_011226149 |
| LCDJKOIP_1 | 42153 | 42992 | cbpD | 0.0 | Autolysin | Exoenzyme | 99.52 | 100.00 | WP_011226733 |
| LCDJKOIP_1 | 1129112 | 1129705 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 99.50 | 100.00 | WP_011226149 |
| LCDJKOIP_1 | 1129112 | 1129705 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 99.50 | 100.00 | WP_011226149 |
| LCDJKOIP_1 | 1129705 | 1130574 | rfbA | 0.0 | Capsule | Immune modulation | 99.42 | 100.00 | WP_011681286 |
| LCDJKOIP_1 | 892972 | 894630 | fbp54 | 0.0 | FBPs | Adherence | 99.40 | 100.00 | WP_011227179 |
| LCDJKOIP_1 | 1007703 | 1008434 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 99.18 | 100.00 | WP_011681176 |
| LCDJKOIP_1 | 1074693 | 1075481 | cshA | 0.0 | Cell surface hydrophobicity proteins | Adherence | 98.86 | 99.75 | - |
| LCDJKOIP_1 | 1007703 | 1008434 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 98.77 | 100.00 | WP_011227248 |
| LCDJKOIP_1 | 1006252 | 1006992 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 98.65 | 100.00 | WP_011681174 |
| LCDJKOIP_1 | 1007703 | 1008434 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 98.63 | 100.00 | WP_011226048 |
| LCDJKOIP_1 | 1164467 | 1165228 | srtA | 0.0 | Sortase A | Exoenzyme | 98.42 | 100.00 | - |
| LCDJKOIP_1 | 1348028 | 1348744 | STER_RS07085 | 0.0 | Capsule | Immune modulation | 98.33 | 100.00 | WP_011681442 |
| LCDJKOIP_1 | 1006252 | 1006992 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 98.25 | 100.00 | WP_011226046 |
| LCDJKOIP_1 | 1008435 | 1009895 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 98.02 | 100.00 | WP_011681177 |
| LCDJKOIP_1 | 1006257 | 1006992 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 97.96 | 98.13 | WP_011227246 |
| LCDJKOIP_1 | 1008435 | 1009895 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 96.99 | 100.21 | WP_011226049 |
| LCDJKOIP_1 | 1346912 | 1347682 | STER_RS07075 | 0.0 | Capsule | Immune modulation | 96.89 | 99.10 | WP_011681440 |
| LCDJKOIP_1 | 1007002 | 1007694 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 96.83 | 99.86 | WP_011226047 |
| LCDJKOIP_1 | 1007002 | 1007694 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 96.54 | 100.00 | WP_011227247 |
| LCDJKOIP_1 | 1008435 | 1009895 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 96.37 | 100.21 | WP_041827043 |
| LCDJKOIP_1 | 1004830 | 1006195 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 95.17 | 99.85 | WP_011681173 |
| LCDJKOIP_1 | 1004828 | 1006195 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 94.22 | 100.00 | WP_011226045 |
| LCDJKOIP_1 | 1352888 | 1353739 | rfbD | 0.0 | Capsule | Immune modulation | 94.13 | 100.00 | WP_014621820 |
| LCDJKOIP_1 | 1007002 | 1007694 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 89.90 | 100.00 | WP_011681175 |
| LCDJKOIP_1 | 588444 | 589747 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.09 | 99.54 | WP_000022832 |
| LCDJKOIP_1 | 1631408 | 1632418 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 86.43 | 99.51 | WP_002986042 |
| LCDJKOIP_1 | 1127636 | 1128682 | rfbB | 0.0 | Capsule | Immune modulation | 80.61 | 100.00 | WP_009659423 |
| LCDJKOIP_1 | 134283 | 135566 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.58 | 99.77 | WP_000107753 |
| LCDJKOIP_1 | 996668 | 997251 | SPD_RS01775 | 1.08e-146 | 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 |
|---|---|---|---|---|---|---|---|---|
| LCDJKOIP_1 | 701227 | 702300 | MntE | 0.0 | manganese homeostasis | 94.69 | 99.72 | ABF32167 |
| LCDJKOIP_1 | 1167915 | 1168898 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 94.51 | 100.00 | AAK75326 |
| LCDJKOIP_1 | 506166 | 507134 | spr0084 | 0.0 | pathogenitcity related | 92.57 | 98.48 | AAK98888 |
| LCDJKOIP_1 | 1509371 | 1511674 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 92.45 | 99.22 | AAK74619 |
| LCDJKOIP_1 | 1238838 | 1240319 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 92.11 | 100.00 | ABJ54480 |
| LCDJKOIP_1 | 729799 | 732045 | metE | 0.0 | methionine biosynthesis enzymes | 91.59 | 100.00 | AAK74738 |
| LCDJKOIP_1 | 61782 | 62783 | recA | 0.0 | DNA recombination and repair | 91.02 | 86.08 | AAL00560 |
| LCDJKOIP_1 | 25526 | 26497 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 89.81 | 100.00 | ABF36968 |
| LCDJKOIP_1 | 1395208 | 1394057 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.32 | 99.74 | AAL00050 |
| LCDJKOIP_1 | 1367214 | 1365226 | uvrB | 0.0 | excinuclease ABC, B subunit | 88.99 | 100.00 | AE014259_2 |
| LCDJKOIP_1 | 1151725 | 1149995 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 88.22 | 100.00 | AAK34199 |
| LCDJKOIP_1 | 1809789 | 1808311 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.83 | 100.00 | ADE32434 |
| LCDJKOIP_1 | 588444 | 589745 | Eno | 0.0 | enolase | 86.44 | 99.77 | ABP90468 |
| LCDJKOIP_1 | 1794729 | 1792837 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.74 | 98.90 | ABP91129 |
| LCDJKOIP_1 | 734970 | 733261 | PGM | 0.0 | phosphoglucomutase | 84.06 | 99.65 | ACH87041 |
| LCDJKOIP_1 | 1669489 | 1670499 | pdh | 0.0 | pyruvate dehydrogenase | 82.79 | 99.70 | ABP91006 |
| LCDJKOIP_1 | 927790 | 926429 | mnmE | 0.0 | central tRNA-modifying GTPase | 81.80 | 99.56 | ABP90420 |
| LCDJKOIP_1 | 1719732 | 1717840 | PepO | 0.0 | endopeptidase | 80.03 | 100.00 | ABF32980 |
| LCDJKOIP_1 | 574013 | 574903 | bglB | 1.31e-178 | putative phospho--glucosidase | 88.89 | 99.66 | AAK33487 |
| LCDJKOIP_1 | 790831 | 789893 | SP_0676 | 4.18e-167 | transcription facot | 81.15 | 97.20 | AAK74821 |
| LCDJKOIP_1 | 732237 | 733094 | metF | 1.78e-165 | methionine biosynthesis enzymes | 86.71 | 99.31 | AAK74739 |
| LCDJKOIP_1 | 1047018 | 1046314 | covR | 3.41e-130 | responder protein | 84.68 | 100.00 | AAK71319 |
| LCDJKOIP_1 | 1219860 | 1219189 | rr01 | 4.11e-125 | response regulator | 84.38 | 99.56 | CAB54566 |
| LCDJKOIP_1 | 738923 | 739591 | CiaR | 8.84e-124 | two-component response regulator | 87.00 | 99.55 | AAK74935 |
| LCDJKOIP_1 | 738923 | 739594 | ciaR | 2.50e-121 | two component system response regulator | 84.82 | 99.12 | AIK75708 |
| LCDJKOIP_1 | 1047018 | 1046314 | walR | 8.95e-121 | DNA-binding response regulator | 81.70 | 100.00 | ANC99504 |
| LCDJKOIP_1 | 291830 | 292516 | CovR | 9.90e-118 | serves to repress GAS virulence factor-encoding genes | 80.79 | 100.00 | ACE75886 |
| LCDJKOIP_1 | 63056 | 63451 | SpxA2 | 3.64e-74 | transcriptional regulator | 90.91 | 100.00 | ERL21461 |
| LCDJKOIP_1 | 135724 | 136224 | RopE (M5005_Spy_1611) | 9.17e-75 | probable DNA-directed RNA polymerase subunit delta | 81.44 | 87.43 | AAK34603 |
| LCDJKOIP_1 | 1509395 | 1511668 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 83.16 | 97.06 | MYN69560 |
| LCDJKOIP_1 | 1705351 | 1704332 | 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. |
|---|---|---|---|---|---|---|
| LCDJKOIP_1 | 491281 | 492228 | rep37 | 948 / 945 | 90.72 | HM050421 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| LCDJKOIP_1 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| LCDJKOIP_1 | 804294 | 853208 | False | Siphoviridae | VOG1020, VOG3490, VOG0052, VOG0322, VOG0275, VOG7656, VOG4602, VOG6127, VOG3622, VOG4552, VOG8337, VOG11077, VOG0650, VOG1638, VOG0651, VOG5321, VOG4566, VOG0189, VOG3430, VOG1309, VOG0685, VOG0226, VOG4693, VOG0655, VOG0656, VOG6414, VOG0152, VOG0152, VOG0657, VOG0044, VOG0658, VOG0198, VOG0796, VOG4544, VOG0720, VOG4564, VOG4555, VOG3434, VOG1887, VOG3435, VOG4713, VOG0723, VOG5660, VOG0724, VOG0799, VOG0725, VOG0800, VOG3636, VOG4605, VOG4599, VOG0647, VOG4782, VOG3298, VOG3424, VOG0054, VOG4649, VOG3299, VOG3300, VOG3303, VOG10946 |
Phigaro v2.4.0 (Database: Jan. 2024 release)