Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 20 | 33 | 38.64 |
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. |
|---|---|---|---|---|---|---|---|
| KHMKAEIP_7 | 64175 | 65392 | mef(A) | Erythromycin, Azithromycin | 100.00 | 100.00 | U83667 |
| KHMKAEIP_7 | 65512 | 66975 | 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. |
|---|---|---|---|---|---|---|---|---|
| KHMKAEIP_7 | 64175 | 65389 | mef(A) | macrolide efflux MFS transporter Mef(A) | EXACTX | 100.00 | 100.00 | WP_000417519.1 |
| KHMKAEIP_7 | 65512 | 66972 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| KHMKAEIP_1 | 245812 | 246527 | STER_RS07085 | 0.0 | Capsule | Immune modulation | 96.65 | 99.86 | WP_011681442 |
| KHMKAEIP_5 | 113693 | 114433 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 95.01 | 100.00 | WP_011681174 |
| KHMKAEIP_1 | 241651 | 242502 | rfbD | 0.0 | Capsule | Immune modulation | 94.72 | 100.00 | WP_014621820 |
| KHMKAEIP_1 | 244842 | 245810 | STER_RS07090 | 0.0 | Capsule | Immune modulation | 94.63 | 100.00 | WP_011681443 |
| KHMKAEIP_5 | 113693 | 114433 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 94.33 | 100.00 | WP_011226046 |
| KHMKAEIP_5 | 110790 | 112250 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 94.05 | 100.14 | WP_011226049 |
| KHMKAEIP_5 | 114490 | 115857 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 93.93 | 100.00 | WP_011226045 |
| KHMKAEIP_5 | 110790 | 112250 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 93.91 | 100.00 | WP_011681177 |
| KHMKAEIP_5 | 113693 | 114428 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 93.75 | 98.13 | WP_011227246 |
| KHMKAEIP_5 | 114490 | 115855 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 93.63 | 99.85 | WP_011681173 |
| KHMKAEIP_5 | 110790 | 112250 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 93.16 | 100.14 | WP_041827043 |
| KHMKAEIP_1 | 246873 | 247649 | STER_RS07075 | 0.0 | Capsule | Immune modulation | 92.66 | 100.00 | WP_011681440 |
| KHMKAEIP_1 | 242621 | 243874 | STER_RS07100 | 0.0 | Capsule | Immune modulation | 92.51 | 99.52 | WP_011681445 |
| KHMKAEIP_5 | 112251 | 112982 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 91.94 | 100.00 | WP_011226048 |
| KHMKAEIP_9 | 24513 | 25106 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 91.75 | 100.00 | WP_011226149 |
| KHMKAEIP_9 | 24513 | 25106 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 91.58 | 100.00 | WP_011226149 |
| KHMKAEIP_9 | 24513 | 25106 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 91.58 | 100.00 | WP_011226149 |
| KHMKAEIP_5 | 112251 | 112982 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 91.53 | 100.00 | WP_011681176 |
| KHMKAEIP_9 | 23644 | 24513 | rfbA | 0.0 | Capsule | Immune modulation | 91.38 | 100.00 | WP_011681286 |
| KHMKAEIP_2 | 52164 | 53821 | fbp54 | 0.0 | FBPs | Adherence | 91.14 | 99.88 | WP_011227179 |
| KHMKAEIP_5 | 112251 | 112982 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 90.98 | 100.00 | WP_011227248 |
| KHMKAEIP_13 | 18320 | 19159 | cbpD | 0.0 | Autolysin | Exoenzyme | 90.95 | 100.00 | WP_011226733 |
| KHMKAEIP_10 | 63680 | 64690 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 88.45 | 99.80 | WP_002986042 |
| KHMKAEIP_7 | 36067 | 37370 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.24 | 99.54 | WP_000022832 |
| KHMKAEIP_5 | 112991 | 113683 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 88.04 | 99.86 | WP_011227247 |
| KHMKAEIP_5 | 112991 | 113683 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 88.04 | 99.86 | WP_011226047 |
| KHMKAEIP_5 | 112991 | 113683 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 87.46 | 99.86 | WP_011681175 |
| KHMKAEIP_2 | 199185 | 199946 | srtA | 0.0 | Sortase A | Exoenzyme | 84.40 | 99.87 | - |
| KHMKAEIP_9 | 25309 | 26355 | rfbB | 0.0 | Capsule | Immune modulation | 83.97 | 99.90 | WP_002263087 |
| KHMKAEIP_4 | 1994 | 3277 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.84 | 99.61 | WP_000107753 |
| KHMKAEIP_5 | 124930 | 125515 | SPD_RS01775 | 3.49e-147 | Capsule | Immune modulation | 82.96 | 96.53 | 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 |
|---|---|---|---|---|---|---|---|---|
| KHMKAEIP_2 | 202634 | 203617 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 96.34 | 100.00 | AAK75326 |
| KHMKAEIP_2 | 191051 | 189978 | MntE | 0.0 | manganese homeostasis | 95.53 | 99.72 | ABF32167 |
| KHMKAEIP_1 | 60984 | 58678 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 94.41 | 99.22 | AAK74619 |
| KHMKAEIP_8 | 21344 | 19863 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 93.32 | 100.00 | ABJ54480 |
| KHMKAEIP_2 | 171991 | 169745 | metE | 0.0 | methionine biosynthesis enzymes | 92.92 | 100.00 | AAK74738 |
| KHMKAEIP_6 | 58902 | 57934 | spr0084 | 0.0 | pathogenitcity related | 92.88 | 98.48 | AAK98888 |
| KHMKAEIP_13 | 3899 | 4870 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 91.67 | 100.00 | ABF36968 |
| KHMKAEIP_17 | 27775 | 29505 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 89.95 | 100.00 | AAK34199 |
| KHMKAEIP_1 | 199385 | 200536 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.58 | 99.74 | AAL00050 |
| KHMKAEIP_1 | 227746 | 229734 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.44 | 100.00 | AE014259_2 |
| KHMKAEIP_3 | 25733 | 27211 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.83 | 100.00 | ADE32434 |
| KHMKAEIP_7 | 36067 | 37368 | Eno | 0.0 | enolase | 86.44 | 99.77 | ABP90468 |
| KHMKAEIP_3 | 41106 | 42998 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.58 | 98.90 | ABP91129 |
| KHMKAEIP_2 | 166823 | 168532 | PGM | 0.0 | phosphoglucomutase | 84.76 | 99.65 | ACH87041 |
| KHMKAEIP_13 | 37836 | 38927 | recA | 0.0 | DNA recombination and repair | 84.64 | 95.36 | AAL00560 |
| KHMKAEIP_3 | 182267 | 181257 | pdh | 0.0 | pyruvate dehydrogenase | 83.38 | 99.70 | ABP91006 |
| KHMKAEIP_2 | 37700 | 39061 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.24 | 99.56 | ABP90420 |
| KHMKAEIP_7 | 21651 | 22541 | bglB | 2.46e-177 | putative phospho--glucosidase | 87.20 | 99.66 | AAK33487 |
| KHMKAEIP_2 | 124315 | 125265 | SP_0676 | 2.62e-170 | transcription facot | 81.39 | 98.45 | AAK74821 |
| KHMKAEIP_2 | 169555 | 168698 | metF | 2.48e-169 | methionine biosynthesis enzymes | 87.41 | 99.31 | AAK74739 |
| KHMKAEIP_34 | 2240 | 2911 | rr01 | 2.35e-131 | response regulator | 84.38 | 99.56 | CAB54566 |
| KHMKAEIP_5 | 65124 | 65828 | covR | 7.30e-127 | responder protein | 85.53 | 100.00 | AAK71319 |
| KHMKAEIP_2 | 162856 | 162185 | ciaR | 2.43e-125 | two component system response regulator | 86.16 | 99.12 | AIK75708 |
| KHMKAEIP_2 | 162856 | 162188 | CiaR | 1.83e-124 | two-component response regulator | 87.00 | 99.55 | AAK74935 |
| KHMKAEIP_5 | 65124 | 65828 | walR | 1.66e-120 | DNA-binding response regulator | 82.13 | 100.00 | ANC99504 |
| KHMKAEIP_4 | 152514 | 153200 | CovR | 3.67e-120 | serves to repress GAS virulence factor-encoding genes | 81.66 | 100.00 | ACE75886 |
| KHMKAEIP_13 | 39101 | 39496 | SpxA2 | 3.90e-76 | transcriptional regulator | 91.67 | 100.00 | ERL21461 |
| KHMKAEIP_2 | 26229 | 25828 | SpxA1 | 5.42e-70 | transcriptional regulator | 82.84 | 100.00 | ERL19273 |
| KHMKAEIP_12 | 41738 | 42142 | GrpE | 8.27e-68 | protein grpE | 82.96 | 78.82 | ABP89267 |
| KHMKAEIP_15 | 4387 | 4674 | spr0479 | 9.20e-49 | essential gene | 85.42 | 98.97 | AAK99283 |
| KHMKAEIP_6 | 91780 | 91526 | spr1327 | 7.43e-45 | essential gene | 92.94 | 100.00 | AAL00131 |
| KHMKAEIP_3 | 90187 | 89924 | spr0175 | 1.09e-42 | pathogenitcity related | 85.23 | 100.00 | AAK98979 |
| KHMKAEIP_3 | 89363 | 89097 | spr0177 | 2.42e-41 | essential gene | 83.15 | 88.12 | AAK98981 |
| KHMKAEIP_4 | 3444 | 3935 | RopE (M5005_Spy_1611) | 8.12e-73 | probable DNA-directed RNA polymerase subunit delta | 82.93 | 85.86 | AAK34603 |
| KHMKAEIP_1 | 60984 | 58684 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 83.09 | 98.08 | MYN69560 |
| KHMKAEIP_3 | 145829 | 146848 | ilvC (SPD_0406) | 0.0 | ketol-acid reductoisomerase (NADP(+)) | 97.35 | 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 |
|---|---|---|---|
| KHMKAEIP_1 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_2 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_3 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_4 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_5 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_6 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_7 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_8 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_9 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_10 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_11 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_12 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_13 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_14 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_15 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_16 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_17 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_18 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_19 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_20 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_21 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_22 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_23 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_26 | 1.0 | 0.0 | 1.0 |
| KHMKAEIP_27 | 1.0 | 0.0 | 1.0 |
| KHMKAEIP_28 | 1.0 | 0.0 | 1.0 |
| KHMKAEIP_29 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_30 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_31 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_33 | 1.0 | 0.0 | 1.0 |
| KHMKAEIP_34 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_35 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_36 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_37 | 1.0 | 0.0 | 1.0 |
| KHMKAEIP_38 | 1.0 | 0.0 | 1.0 |
| KHMKAEIP_39 | 1.0 | 0.0 | 1.0 |
| KHMKAEIP_40 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_41 | 0.0 | 1.0 | 0.0 |
| KHMKAEIP_42 | 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)