Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 22 | 31 | 38.07 |
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. |
|---|---|---|---|---|---|---|---|
| NKEEKGIC_1 | 669607 | 671070 | msr(D) | Erythromycin, Azithromycin, Telithromycin, Quinupristin, Pristinamycin IA, Virginiamycin S | 100.00 | 100.00 | AF274302 |
| NKEEKGIC_1 | 668270 | 669487 | mef(A) | Erythromycin, Azithromycin | 99.92 | 100.00 | U83667 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| NKEEKGIC_1 | 668270 | 669484 | mef(A) | macrolide efflux MFS transporter Mef(A) | EXACTX | 100.00 | 100.00 | WP_000417519.1 |
| NKEEKGIC_1 | 669607 | 671067 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| NKEEKGIC_1 | 991843 | 993303 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 97.40 | 100.00 | WP_011681177 |
| NKEEKGIC_1 | 991843 | 993303 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 96.78 | 100.21 | WP_011226049 |
| NKEEKGIC_1 | 991843 | 993303 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 96.23 | 100.21 | WP_041827043 |
| NKEEKGIC_1 | 1605343 | 1606152 | STU_RS16245 | 0.0 | Capsule | Immune modulation | 95.80 | 100.00 | WP_002948020 |
| NKEEKGIC_1 | 995543 | 996908 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 94.66 | 99.85 | WP_011681173 |
| NKEEKGIC_1 | 1613277 | 1614128 | rfbD | 0.0 | Capsule | Immune modulation | 94.48 | 100.00 | WP_014621820 |
| NKEEKGIC_1 | 994746 | 995486 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 94.47 | 100.00 | WP_011681174 |
| NKEEKGIC_1 | 1610905 | 1612176 | STU_RS16265 | 0.0 | Capsule | Immune modulation | 94.18 | 99.76 | WP_011226331 |
| NKEEKGIC_1 | 995543 | 996910 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 94.15 | 100.00 | WP_011226045 |
| NKEEKGIC_1 | 993304 | 994035 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 94.13 | 100.00 | WP_011681176 |
| NKEEKGIC_1 | 124959 | 126242 | tig/ropA | 0.0 | Trigger factor | Stress survival | 94.08 | 100.00 | WP_011225339 |
| NKEEKGIC_1 | 994746 | 995486 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 94.06 | 100.00 | WP_011226046 |
| NKEEKGIC_1 | 993304 | 994035 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 93.99 | 100.00 | WP_011226048 |
| NKEEKGIC_1 | 819488 | 820081 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 93.77 | 100.00 | WP_011226149 |
| NKEEKGIC_1 | 1601303 | 1603087 | STU_RS16230 | 0.0 | Capsule | Immune modulation | 93.62 | 99.94 | WP_011226325 |
| NKEEKGIC_1 | 819488 | 820081 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 93.60 | 100.00 | WP_011226149 |
| NKEEKGIC_1 | 819488 | 820081 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 93.60 | 100.00 | WP_011226149 |
| NKEEKGIC_1 | 994746 | 995481 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 93.48 | 98.13 | WP_011227246 |
| NKEEKGIC_1 | 993304 | 994035 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 93.31 | 100.00 | WP_011227248 |
| NKEEKGIC_1 | 1604138 | 1605343 | STU_RS16240 | 0.0 | Capsule | Immune modulation | 92.70 | 100.00 | WP_011226326 |
| NKEEKGIC_1 | 1606136 | 1607092 | STU_RS16250 | 0.0 | Capsule | Immune modulation | 92.69 | 100.00 | WP_011226328 |
| NKEEKGIC_1 | 1607089 | 1608237 | STU_RS16255 | 0.0 | Capsule | Immune modulation | 92.34 | 100.00 | WP_041828290 |
| NKEEKGIC_1 | 1603084 | 1604118 | STU_RS16235 | 0.0 | Capsule | Immune modulation | 91.39 | 99.05 | WP_002948022 |
| NKEEKGIC_1 | 818619 | 819488 | rfbA | 0.0 | Capsule | Immune modulation | 91.26 | 100.00 | WP_011681286 |
| NKEEKGIC_1 | 41147 | 41986 | cbpD | 0.0 | Autolysin | Exoenzyme | 90.95 | 100.00 | WP_011226733 |
| NKEEKGIC_1 | 1101621 | 1103279 | fbp54 | 0.0 | FBPs | Adherence | 90.12 | 99.94 | WP_011227179 |
| NKEEKGIC_1 | 1937730 | 1938740 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 88.65 | 99.80 | WP_002986042 |
| NKEEKGIC_1 | 994044 | 994736 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 88.62 | 99.86 | WP_011227247 |
| NKEEKGIC_1 | 994044 | 994736 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 88.62 | 99.86 | WP_011226047 |
| NKEEKGIC_1 | 647429 | 648732 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.32 | 99.54 | WP_000022832 |
| NKEEKGIC_1 | 994044 | 994736 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 87.75 | 99.86 | WP_011681175 |
| NKEEKGIC_1 | 1254521 | 1255281 | srtA | 0.0 | Sortase A | Exoenzyme | 83.64 | 99.61 | - |
| NKEEKGIC_1 | 820285 | 821331 | rfbB | 0.0 | Capsule | Immune modulation | 80.71 | 100.00 | WP_009659423 |
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 |
|---|---|---|---|---|---|---|---|---|
| NKEEKGIC_1 | 1246392 | 1245319 | MntE | 0.0 | manganese homeostasis | 96.09 | 99.72 | ABF32167 |
| NKEEKGIC_1 | 1257969 | 1258952 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 95.73 | 100.00 | AAK75326 |
| NKEEKGIC_1 | 1808062 | 1810368 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 94.28 | 99.22 | AAK74619 |
| NKEEKGIC_1 | 1383638 | 1385119 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 93.32 | 100.00 | ABJ54480 |
| NKEEKGIC_1 | 556331 | 557299 | spr0084 | 0.0 | pathogenitcity related | 92.88 | 98.48 | AAK98888 |
| NKEEKGIC_1 | 1217588 | 1215342 | metE | 0.0 | methionine biosynthesis enzymes | 92.39 | 100.00 | AAK74738 |
| NKEEKGIC_1 | 22254 | 23225 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 91.67 | 100.00 | ABF36968 |
| NKEEKGIC_1 | 793241 | 794971 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 89.95 | 100.00 | AAK34199 |
| NKEEKGIC_1 | 1627383 | 1625395 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.59 | 100.00 | AE014259_2 |
| NKEEKGIC_1 | 1657199 | 1656048 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.58 | 99.74 | AAL00050 |
| NKEEKGIC_1 | 2124746 | 2123268 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.63 | 100.00 | ADE32434 |
| NKEEKGIC_1 | 647429 | 648730 | Eno | 0.0 | enolase | 86.44 | 99.77 | ABP90468 |
| NKEEKGIC_1 | 2109426 | 2107534 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.42 | 98.90 | ABP91129 |
| NKEEKGIC_1 | 1212420 | 1214129 | PGM | 0.0 | phosphoglucomutase | 84.76 | 99.65 | ACH87041 |
| NKEEKGIC_1 | 61035 | 62126 | recA | 0.0 | DNA recombination and repair | 84.64 | 95.36 | AAL00560 |
| NKEEKGIC_1 | 1994136 | 1995146 | pdh | 0.0 | pyruvate dehydrogenase | 82.79 | 99.70 | ABP91006 |
| NKEEKGIC_1 | 1087856 | 1089217 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.46 | 99.56 | ABP90420 |
| NKEEKGIC_1 | 633021 | 633911 | bglB | 2.66e-177 | putative phospho--glucosidase | 87.88 | 99.66 | AAK33487 |
| NKEEKGIC_1 | 1171567 | 1172505 | SP_0676 | 1.83e-168 | transcription facot | 81.79 | 97.20 | AAK74821 |
| NKEEKGIC_1 | 1215152 | 1214295 | metF | 9.27e-168 | methionine biosynthesis enzymes | 87.06 | 99.31 | AAK74739 |
| NKEEKGIC_1 | 437057 | 437761 | NisK | 4.41e-130 | two-component signal-transduction systems | 91.06 | 100.00 | ABP89872 |
| NKEEKGIC_1 | 436389 | 437069 | NisR | 2.59e-129 | two-component signal-transduction systems | 93.39 | 100.00 | ABP89873 |
| NKEEKGIC_1 | 1326684 | 1326013 | rr01 | 1.52e-125 | response regulator | 84.38 | 99.56 | CAB54566 |
| NKEEKGIC_1 | 946343 | 947047 | covR | 3.39e-125 | responder protein | 85.11 | 100.00 | AAK71319 |
| NKEEKGIC_1 | 1208452 | 1207781 | ciaR | 9.55e-124 | two component system response regulator | 85.71 | 99.12 | AIK75708 |
| NKEEKGIC_1 | 1208452 | 1207784 | CiaR | 1.19e-123 | two-component response regulator | 87.00 | 99.55 | AAK74935 |
| NKEEKGIC_1 | 279690 | 280376 | CovR | 4.68e-119 | serves to repress GAS virulence factor-encoding genes | 81.66 | 100.00 | ACE75886 |
| NKEEKGIC_1 | 946343 | 947047 | walR | 6.22e-119 | DNA-binding response regulator | 81.70 | 100.00 | ANC99504 |
| NKEEKGIC_1 | 62302 | 62697 | SpxA2 | 2.11e-74 | transcriptional regulator | 91.67 | 100.00 | ERL21461 |
| NKEEKGIC_1 | 1076387 | 1075986 | SpxA1 | 4.38e-69 | transcriptional regulator | 82.84 | 100.00 | ERL19273 |
| NKEEKGIC_1 | 109771 | 110184 | GrpE | 3.94e-66 | protein grpE | 81.16 | 80.59 | ABP89267 |
| NKEEKGIC_1 | 126409 | 126900 | RopE (M5005_Spy_1611) | 1.04e-71 | probable DNA-directed RNA polymerase subunit delta | 82.93 | 85.86 | AAK34603 |
| NKEEKGIC_1 | 1808062 | 1810362 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 82.97 | 98.08 | MYN69560 |
| NKEEKGIC_1 | 2032171 | 2031152 | 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 |
|---|---|---|---|
| NKEEKGIC_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 |
|---|---|---|---|---|---|
| No hit found | |||||
Phigaro v2.4.0 (Database: Jan. 2024 release)