Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 18 | 35 | 39.36 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| ONJIBIDI_15 | 13249 | 13964 | STER_RS07085 | 0.0 | Capsule | Immune modulation | 96.51 | 99.86 | WP_011681442 |
| ONJIBIDI_15 | 12279 | 13247 | STER_RS07090 | 0.0 | Capsule | Immune modulation | 95.25 | 100.00 | WP_011681443 |
| ONJIBIDI_15 | 9088 | 9939 | rfbD | 0.0 | Capsule | Immune modulation | 95.07 | 100.00 | WP_014621820 |
| ONJIBIDI_8 | 1816 | 2547 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 94.40 | 100.00 | WP_011227248 |
| ONJIBIDI_8 | 1816 | 2547 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 93.99 | 100.00 | WP_011681176 |
| ONJIBIDI_8 | 1816 | 2547 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 93.72 | 100.00 | WP_011226048 |
| ONJIBIDI_15 | 14310 | 15080 | STER_RS07075 | 0.0 | Capsule | Immune modulation | 92.87 | 99.23 | WP_011681440 |
| ONJIBIDI_15 | 10058 | 11311 | STER_RS07100 | 0.0 | Capsule | Immune modulation | 92.35 | 99.52 | WP_011681445 |
| ONJIBIDI_8 | 355 | 1815 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 91.33 | 99.86 | WP_011681177 |
| ONJIBIDI_1 | 24526 | 25119 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 91.08 | 100.00 | WP_011226149 |
| ONJIBIDI_11 | 63172 | 64830 | fbp54 | 0.0 | FBPs | Adherence | 91.08 | 99.94 | WP_011227179 |
| ONJIBIDI_1 | 24526 | 25119 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 90.91 | 100.00 | WP_011226149 |
| ONJIBIDI_1 | 24526 | 25119 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 90.91 | 100.00 | WP_011226149 |
| ONJIBIDI_8 | 355 | 1815 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 90.72 | 100.00 | WP_011226049 |
| ONJIBIDI_8 | 2556 | 3248 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 90.04 | 100.00 | WP_011226047 |
| ONJIBIDI_8 | 355 | 1815 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 90.03 | 100.00 | WP_041827043 |
| ONJIBIDI_8 | 2556 | 3248 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 89.75 | 100.00 | WP_011227247 |
| ONJIBIDI_8 | 2556 | 3248 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 89.61 | 100.00 | WP_011681175 |
| ONJIBIDI_55 | 35766 | 37069 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.24 | 99.54 | WP_000022832 |
| ONJIBIDI_2 | 5480 | 6319 | cbpD | 0.0 | Autolysin | Exoenzyme | 87.87 | 99.88 | WP_011226733 |
| ONJIBIDI_18 | 13473 | 14486 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 85.67 | 99.90 | WP_002986042 |
| ONJIBIDI_3 | 31438 | 32199 | srtA | 0.0 | Sortase A | Exoenzyme | 85.08 | 99.74 | - |
| ONJIBIDI_1 | 25389 | 26435 | rfbB | 0.0 | Capsule | Immune modulation | 83.59 | 99.90 | WP_002263087 |
| ONJIBIDI_54 | 120191 | 121474 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.76 | 99.61 | WP_000107753 |
| ONJIBIDI_1 | 23657 | 24526 | rfbA | 0.0 | Capsule | Immune modulation | 80.28 | 99.77 | WP_002904719 |
| ONJIBIDI_8 | 3258 | 3928 | STU_RS14635 | 1.26e-146 | Capsule | Immune modulation | 80.83 | 90.28 | WP_011226046 |
| ONJIBIDI_8 | 3258 | 3928 | STER_RS05305 | 5.86e-145 | Capsule | Immune modulation | 80.68 | 90.28 | WP_011681174 |
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 |
|---|---|---|---|---|---|---|---|---|
| ONJIBIDI_3 | 34888 | 35871 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 96.95 | 100.00 | AAK75326 |
| ONJIBIDI_3 | 23302 | 22229 | MntE | 0.0 | manganese homeostasis | 95.81 | 99.72 | ABF32167 |
| ONJIBIDI_22 | 42323 | 40017 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 94.41 | 99.22 | AAK74619 |
| ONJIBIDI_3 | 3497 | 1251 | metE | 0.0 | methionine biosynthesis enzymes | 93.06 | 100.00 | AAK74738 |
| ONJIBIDI_2 | 70652 | 71620 | spr0084 | 0.0 | pathogenitcity related | 92.57 | 98.48 | AAK98888 |
| ONJIBIDI_33 | 103539 | 105020 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 92.51 | 100.00 | ABJ54480 |
| ONJIBIDI_12 | 4362 | 5333 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 91.67 | 100.00 | ABF36968 |
| ONJIBIDI_33 | 13595 | 7122 | PrtA | 0.0 | serine protease | 91.35 | 100.61 | ABJ55268 |
| ONJIBIDI_56 | 102544 | 104274 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 89.95 | 100.00 | AAK34199 |
| ONJIBIDI_20 | 4967 | 6955 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.59 | 100.00 | AE014259_2 |
| ONJIBIDI_22 | 174129 | 175280 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.58 | 99.74 | AAL00050 |
| ONJIBIDI_6 | 7340 | 8818 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.83 | 100.00 | ADE32434 |
| ONJIBIDI_55 | 37069 | 35768 | Eno | 0.0 | enolase | 86.44 | 99.77 | ABP90468 |
| ONJIBIDI_6 | 23120 | 25012 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.58 | 98.90 | ABP91129 |
| ONJIBIDI_12 | 39510 | 40601 | recA | 0.0 | DNA recombination and repair | 84.91 | 95.36 | AAL00560 |
| ONJIBIDI_11 | 186666 | 188375 | PGM | 0.0 | phosphoglucomutase | 84.59 | 99.65 | ACH87041 |
| ONJIBIDI_53 | 103740 | 102730 | pdh | 0.0 | pyruvate dehydrogenase | 83.09 | 99.70 | ABP91006 |
| ONJIBIDI_11 | 49246 | 50607 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.89 | 99.56 | ABP90420 |
| ONJIBIDI_55 | 51487 | 50597 | bglB | 1.45e-178 | putative phospho--glucosidase | 87.88 | 99.66 | AAK33487 |
| ONJIBIDI_3 | 1061 | 204 | metF | 3.01e-169 | methionine biosynthesis enzymes | 87.06 | 99.31 | AAK74739 |
| ONJIBIDI_11 | 145121 | 146059 | SP_0676 | 1.29e-168 | transcription facot | 81.47 | 97.20 | AAK74821 |
| ONJIBIDI_56 | 65683 | 64826 | mtsA | 3.28e-152 | substrate-binding lipoprotein of manganese transporter | 80.14 | 92.86 | AIK76191 |
| ONJIBIDI_13 | 22122 | 21418 | covR | 1.73e-127 | responder protein | 85.53 | 100.00 | AAK71319 |
| ONJIBIDI_33 | 37613 | 36942 | rr01 | 3.89e-127 | response regulator | 84.82 | 99.56 | CAB54566 |
| ONJIBIDI_11 | 182000 | 181329 | ciaR | 1.81e-125 | two component system response regulator | 86.16 | 99.12 | AIK75708 |
| ONJIBIDI_11 | 182000 | 181332 | CiaR | 3.34e-125 | two-component response regulator | 87.44 | 99.55 | AAK74935 |
| ONJIBIDI_13 | 22122 | 21418 | walR | 3.92e-121 | DNA-binding response regulator | 82.13 | 100.00 | ANC99504 |
| ONJIBIDI_7 | 36577 | 35891 | CovR | 5.11e-121 | serves to repress GAS virulence factor-encoding genes | 82.10 | 100.00 | ACE75886 |
| ONJIBIDI_31 | 777 | 382 | SpxA2 | 3.70e-84 | transcriptional regulator | 91.67 | 100.00 | ERL21461 |
| ONJIBIDI_11 | 37792 | 37391 | SpxA1 | 1.20e-69 | transcriptional regulator | 82.09 | 100.00 | ERL19273 |
| ONJIBIDI_10 | 35113 | 35526 | GrpE | 3.24e-68 | protein grpE | 81.88 | 80.59 | ABP89267 |
| ONJIBIDI_7 | 13373 | 13086 | spr0479 | 3.35e-48 | essential gene | 85.42 | 98.97 | AAK99283 |
| ONJIBIDI_4 | 37049 | 36795 | spr1327 | 2.14e-46 | essential gene | 94.12 | 100.00 | AAL00131 |
| ONJIBIDI_6 | 54301 | 54038 | spr0175 | 3.30e-43 | pathogenitcity related | 85.23 | 100.00 | AAK98979 |
| ONJIBIDI_6 | 53477 | 53211 | spr0177 | 7.34e-42 | essential gene | 83.15 | 88.12 | AAK98981 |
| ONJIBIDI_54 | 120024 | 119533 | RopE (M5005_Spy_1611) | 5.96e-73 | probable DNA-directed RNA polymerase subunit delta | 82.93 | 85.86 | AAK34603 |
| ONJIBIDI_22 | 42323 | 40023 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 83.22 | 98.08 | MYN69560 |
| ONJIBIDI_53 | 67325 | 68344 | ilvC (SPD_0406) | 0.0 | ketol-acid reductoisomerase (NADP(+)) | 85.88 | 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. |
|---|---|---|---|---|---|---|
| ONJIBIDI_25 | 980 | 1928 | rep37 | 949 / 948 | 85.99 | AF177168 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| ONJIBIDI_1 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_2 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_3 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_4 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_5 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_6 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_7 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_8 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_9 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_10 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_11 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_12 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_13 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_14 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_15 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_16 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_17 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_18 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_19 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_20 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_21 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_22 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_24 | 1.0 | 0.0 | 1.0 |
| ONJIBIDI_25 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_26 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_27 | 1.0 | 0.0 | 1.0 |
| ONJIBIDI_28 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_29 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_30 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_31 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_33 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_44 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_53 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_54 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_55 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_56 | 0.0 | 1.0 | 0.0 |
| ONJIBIDI_57 | 0.0 | 1.0 | 0.0 |
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)