Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 20 | 35 | 40.36 |
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. |
|---|---|---|---|---|---|---|---|
| HDOFDFCB_7 | 37465 | 38682 | mef(A) | Erythromycin, Azithromycin | 100.00 | 100.00 | U83667 |
| HDOFDFCB_7 | 35882 | 37345 | msr(D) | Erythromycin, Azithromycin, Telithromycin, Quinupristin, Pristinamycin IA, Virginiamycin S | 100.00 | 100.00 | AF274302 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| HDOFDFCB_7 | 37468 | 38682 | mef(A) | macrolide efflux MFS transporter Mef(A) | EXACTX | 100.00 | 100.00 | WP_000417519.1 |
| HDOFDFCB_7 | 35885 | 37345 | msr(D) | ABC-F type ribosomal protection protein Msr(D) | EXACTX | 100.00 | 100.00 | WP_000420313.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| HDOFDFCB_7 | 107510 | 108241 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 94.81 | 100.00 | WP_011681176 |
| HDOFDFCB_7 | 107510 | 108241 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 94.54 | 100.00 | WP_011226048 |
| HDOFDFCB_63 | 114478 | 115329 | rfbD | 0.0 | Capsule | Immune modulation | 94.13 | 100.00 | WP_014621820 |
| HDOFDFCB_7 | 107510 | 108241 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 94.13 | 100.00 | WP_011227248 |
| HDOFDFCB_63 | 111407 | 112216 | STU_RS16245 | 0.0 | Capsule | Immune modulation | 92.85 | 99.88 | WP_002948020 |
| HDOFDFCB_63 | 107394 | 109150 | STU_RS16230 | 0.0 | Capsule | Immune modulation | 92.60 | 98.43 | WP_011226325 |
| HDOFDFCB_63 | 110202 | 111407 | STU_RS16240 | 0.0 | Capsule | Immune modulation | 92.37 | 100.00 | WP_011226326 |
| HDOFDFCB_63 | 112200 | 113156 | STU_RS16250 | 0.0 | Capsule | Immune modulation | 91.85 | 100.00 | WP_011226328 |
| HDOFDFCB_63 | 113153 | 114301 | STU_RS16255 | 0.0 | Capsule | Immune modulation | 91.57 | 99.83 | WP_041828290 |
| HDOFDFCB_1 | 33938 | 34531 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 91.08 | 100.00 | WP_011226149 |
| HDOFDFCB_26 | 19806 | 21464 | fbp54 | 0.0 | FBPs | Adherence | 91.08 | 99.94 | WP_011227179 |
| HDOFDFCB_63 | 109147 | 110181 | STU_RS16235 | 0.0 | Capsule | Immune modulation | 91.00 | 99.15 | WP_002948022 |
| HDOFDFCB_7 | 108242 | 109702 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 90.92 | 99.86 | WP_011681177 |
| HDOFDFCB_1 | 33938 | 34531 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 90.91 | 100.00 | WP_011226149 |
| HDOFDFCB_1 | 33938 | 34531 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 90.91 | 100.00 | WP_011226149 |
| HDOFDFCB_7 | 108242 | 109702 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 90.78 | 100.00 | WP_011226049 |
| HDOFDFCB_7 | 108242 | 109702 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 89.97 | 100.00 | WP_041827043 |
| HDOFDFCB_22 | 10243 | 11148 | cbpD | 0.0 | Autolysin | Exoenzyme | 89.96 | 93.50 | WP_082302295 |
| HDOFDFCB_7 | 106809 | 107501 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 89.90 | 100.00 | WP_011226047 |
| HDOFDFCB_7 | 106809 | 107501 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 89.61 | 100.00 | WP_011227247 |
| HDOFDFCB_7 | 106809 | 107501 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 89.47 | 100.00 | WP_011681175 |
| HDOFDFCB_18 | 55176 | 56479 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.24 | 99.54 | WP_000022832 |
| HDOFDFCB_24 | 13420 | 14430 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 86.28 | 99.80 | WP_002986042 |
| HDOFDFCB_61 | 148159 | 148920 | srtA | 0.0 | Sortase A | Exoenzyme | 83.88 | 99.87 | - |
| HDOFDFCB_1 | 32637 | 33668 | rfbB | 0.0 | Capsule | Immune modulation | 83.64 | 98.47 | WP_002263087 |
| HDOFDFCB_42 | 1803 | 3086 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.53 | 99.61 | WP_000107753 |
| HDOFDFCB_1 | 34531 | 35400 | rfbA | 0.0 | Capsule | Immune modulation | 80.28 | 99.77 | WP_002904719 |
| HDOFDFCB_7 | 106129 | 106799 | STU_RS14635 | 6.54e-148 | Capsule | Immune modulation | 80.98 | 90.28 | WP_011226046 |
| HDOFDFCB_7 | 106129 | 106799 | STER_RS05305 | 3.04e-146 | Capsule | Immune modulation | 80.83 | 90.28 | WP_011681174 |
| HDOFDFCB_7 | 106197 | 106799 | STR_RS05250 | 3.09e-136 | Capsule | Immune modulation | 81.46 | 80.13 | WP_011227246 |
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 |
|---|---|---|---|---|---|---|---|---|
| HDOFDFCB_61 | 151610 | 152593 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 96.95 | 100.00 | AAK75326 |
| HDOFDFCB_61 | 140023 | 138950 | MntE | 0.0 | manganese homeostasis | 96.09 | 99.72 | ABF32167 |
| HDOFDFCB_52 | 9420 | 7114 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 94.41 | 99.22 | AAK74619 |
| HDOFDFCB_11 | 24010 | 23042 | spr0084 | 0.0 | pathogenitcity related | 93.19 | 98.48 | AAK98888 |
| HDOFDFCB_61 | 120968 | 118722 | metE | 0.0 | methionine biosynthesis enzymes | 92.92 | 100.00 | AAK74738 |
| HDOFDFCB_3 | 77777 | 76296 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 92.92 | 100.00 | ABJ54480 |
| HDOFDFCB_23 | 36358 | 35387 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 91.67 | 100.00 | ABF36968 |
| HDOFDFCB_14 | 52193 | 45720 | PrtA | 0.0 | serine protease | 91.44 | 100.61 | ABJ55268 |
| HDOFDFCB_1 | 60776 | 59046 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 89.95 | 100.00 | AAK34199 |
| HDOFDFCB_63 | 128960 | 126972 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.74 | 100.00 | AE014259_2 |
| HDOFDFCB_52 | 149726 | 150877 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.58 | 99.74 | AAL00050 |
| HDOFDFCB_6 | 88538 | 87060 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.83 | 100.00 | ADE32434 |
| HDOFDFCB_18 | 56479 | 55178 | Eno | 0.0 | enolase | 86.44 | 99.77 | ABP90468 |
| HDOFDFCB_6 | 73197 | 71305 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.74 | 98.90 | ABP91129 |
| HDOFDFCB_61 | 115804 | 117513 | PGM | 0.0 | phosphoglucomutase | 84.76 | 99.65 | ACH87041 |
| HDOFDFCB_23 | 1216 | 125 | recA | 0.0 | DNA recombination and repair | 84.64 | 95.36 | AAL00560 |
| HDOFDFCB_21 | 19513 | 20523 | pdh | 0.0 | pyruvate dehydrogenase | 83.38 | 99.70 | ABP91006 |
| HDOFDFCB_26 | 5880 | 7241 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.89 | 99.56 | ABP90420 |
| HDOFDFCB_20 | 13824 | 12934 | bglB | 6.15e-178 | putative phospho--glucosidase | 87.20 | 99.66 | AAK33487 |
| HDOFDFCB_61 | 75838 | 76788 | SP_0676 | 2.25e-170 | transcription facot | 81.39 | 98.45 | AAK74821 |
| HDOFDFCB_61 | 118532 | 117675 | metF | 5.04e-170 | methionine biosynthesis enzymes | 87.76 | 99.31 | AAK74739 |
| HDOFDFCB_1 | 97643 | 98500 | mtsA | 3.92e-152 | substrate-binding lipoprotein of manganese transporter | 80.49 | 92.86 | AIK76191 |
| HDOFDFCB_36 | 13762 | 14466 | covR | 1.09e-127 | responder protein | 85.53 | 100.00 | AAK71319 |
| HDOFDFCB_14 | 70170 | 69499 | rr01 | 1.59e-127 | response regulator | 84.82 | 99.56 | CAB54566 |
| HDOFDFCB_61 | 111138 | 110467 | ciaR | 6.80e-125 | two component system response regulator | 85.71 | 99.12 | AIK75708 |
| HDOFDFCB_61 | 111138 | 110470 | CiaR | 8.46e-125 | two-component response regulator | 87.00 | 99.55 | AAK74935 |
| HDOFDFCB_12 | 41748 | 42434 | CovR | 6.54e-121 | serves to repress GAS virulence factor-encoding genes | 82.10 | 100.00 | ACE75886 |
| HDOFDFCB_36 | 13762 | 14466 | walR | 9.71e-121 | DNA-binding response regulator | 81.70 | 100.00 | ANC99504 |
| HDOFDFCB_59 | 206 | 601 | SpxA2 | 3.56e-85 | transcriptional regulator | 91.67 | 100.00 | ERL21461 |
| HDOFDFCB_7 | 5796 | 6197 | SpxA1 | 7.03e-70 | transcriptional regulator | 82.09 | 100.00 | ERL19273 |
| HDOFDFCB_38 | 6085 | 5672 | GrpE | 1.31e-69 | protein grpE | 82.61 | 80.59 | ABP89267 |
| HDOFDFCB_12 | 64953 | 65240 | spr0479 | 2.07e-48 | essential gene | 85.42 | 98.97 | AAK99283 |
| HDOFDFCB_11 | 59791 | 59537 | spr1327 | 2.97e-44 | essential gene | 90.59 | 100.00 | AAL00131 |
| HDOFDFCB_6 | 24653 | 24916 | spr0175 | 5.93e-43 | pathogenitcity related | 85.23 | 100.00 | AAK98979 |
| HDOFDFCB_6 | 25478 | 25744 | spr0177 | 1.32e-41 | essential gene | 83.15 | 88.12 | AAK98981 |
| HDOFDFCB_42 | 3253 | 3744 | RopE (M5005_Spy_1611) | 6.88e-74 | probable DNA-directed RNA polymerase subunit delta | 82.93 | 85.86 | AAK34603 |
| HDOFDFCB_52 | 9420 | 7120 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 83.22 | 98.08 | MYN69560 |
| HDOFDFCB_31 | 23260 | 24279 | 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. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| HDOFDFCB_1 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_2 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_3 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_5 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_6 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_7 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_8 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_9 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_10 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_11 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_12 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_13 | 1.0 | 0.0 | 1.0 |
| HDOFDFCB_14 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_16 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_17 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_18 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_19 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_20 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_21 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_22 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_23 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_24 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_26 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_28 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_29 | 1.0 | 0.0 | 1.0 |
| HDOFDFCB_30 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_31 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_32 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_33 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_35 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_36 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_37 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_38 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_42 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_43 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_44 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_45 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_46 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_47 | 1.0 | 0.0 | 1.0 |
| HDOFDFCB_49 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_50 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_52 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_56 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_60 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_61 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_62 | 0.0 | 1.0 | 0.0 |
| HDOFDFCB_63 | 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)