Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 20 | 29 | 35.28 |
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. |
|---|---|---|---|---|---|---|---|
| JNCNAFEI_1 | 1505266 | 1506483 | mef(A) | Erythromycin, Azithromycin | 100.00 | 100.00 | U83667 |
| JNCNAFEI_1 | 1503683 | 1505146 | 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. |
|---|---|---|---|---|---|---|---|---|
| JNCNAFEI_1 | 1505269 | 1506483 | mef(A) | macrolide efflux MFS transporter Mef(A) | EXACTX | 100.00 | 100.00 | WP_000417519.1 |
| JNCNAFEI_1 | 1503686 | 1505146 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| JNCNAFEI_1 | 544930 | 545642 | STER_RS07085 | 0.0 | Capsule | Immune modulation | 96.09 | 99.72 | WP_011681442 |
| JNCNAFEI_1 | 540770 | 541621 | rfbD | 0.0 | Capsule | Immune modulation | 95.07 | 100.00 | WP_014621820 |
| JNCNAFEI_1 | 1175599 | 1176339 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 94.87 | 100.00 | WP_011681174 |
| JNCNAFEI_1 | 543960 | 544928 | STER_RS07090 | 0.0 | Capsule | Immune modulation | 94.84 | 100.00 | WP_011681443 |
| JNCNAFEI_1 | 1175599 | 1176339 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 94.33 | 100.00 | WP_011226046 |
| JNCNAFEI_1 | 1174175 | 1175542 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 94.30 | 100.00 | WP_011226045 |
| JNCNAFEI_1 | 1174177 | 1175542 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 94.22 | 99.85 | WP_011681173 |
| JNCNAFEI_1 | 1175604 | 1176339 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 93.89 | 98.13 | WP_011227246 |
| JNCNAFEI_1 | 1177782 | 1179242 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 93.84 | 100.14 | WP_011226049 |
| JNCNAFEI_1 | 1177782 | 1179242 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 93.84 | 100.00 | WP_011681177 |
| JNCNAFEI_1 | 1177782 | 1179242 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 93.09 | 100.14 | WP_041827043 |
| JNCNAFEI_1 | 545988 | 546764 | STER_RS07075 | 0.0 | Capsule | Immune modulation | 92.66 | 100.00 | WP_011681440 |
| JNCNAFEI_1 | 541740 | 542993 | STER_RS07100 | 0.0 | Capsule | Immune modulation | 92.34 | 99.44 | WP_011681445 |
| JNCNAFEI_1 | 2132588 | 2133427 | cbpD | 0.0 | Autolysin | Exoenzyme | 92.02 | 100.00 | WP_011226733 |
| JNCNAFEI_1 | 1177050 | 1177781 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 91.67 | 100.00 | WP_011226048 |
| JNCNAFEI_1 | 1350606 | 1351199 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 91.41 | 100.00 | WP_011226149 |
| JNCNAFEI_1 | 1177050 | 1177781 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 91.26 | 100.00 | WP_011681176 |
| JNCNAFEI_1 | 1350606 | 1351199 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 91.25 | 100.00 | WP_011226149 |
| JNCNAFEI_1 | 1350606 | 1351199 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 91.25 | 100.00 | WP_011226149 |
| JNCNAFEI_1 | 1177050 | 1177781 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 90.71 | 100.00 | WP_011227248 |
| JNCNAFEI_1 | 1061607 | 1063265 | fbp54 | 0.0 | FBPs | Adherence | 90.66 | 99.94 | WP_011227179 |
| JNCNAFEI_1 | 1351199 | 1352068 | rfbA | 0.0 | Capsule | Immune modulation | 90.46 | 100.00 | WP_011681286 |
| JNCNAFEI_1 | 1176349 | 1177041 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 88.62 | 99.86 | WP_011227247 |
| JNCNAFEI_1 | 1176349 | 1177041 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 88.62 | 99.86 | WP_011226047 |
| JNCNAFEI_1 | 1534320 | 1535623 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.17 | 99.54 | WP_000022832 |
| JNCNAFEI_1 | 1176349 | 1177041 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 87.46 | 99.86 | WP_011681175 |
| JNCNAFEI_1 | 230982 | 231992 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 87.36 | 99.80 | WP_002986042 |
| JNCNAFEI_1 | 1349289 | 1350335 | rfbB | 0.0 | Capsule | Immune modulation | 83.98 | 99.81 | WP_002263087 |
| JNCNAFEI_1 | 915917 | 916678 | srtA | 0.0 | Sortase A | Exoenzyme | 83.88 | 99.87 | - |
| JNCNAFEI_1 | 2044154 | 2045437 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.68 | 99.61 | WP_000107753 |
| JNCNAFEI_1 | 1164517 | 1165100 | SPD_RS01775 | 1.28e-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 |
|---|---|---|---|---|---|---|---|---|
| JNCNAFEI_1 | 913228 | 912254 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 96.31 | 99.09 | AAK75326 |
| JNCNAFEI_1 | 924811 | 925884 | MntE | 0.0 | manganese homeostasis | 95.81 | 99.72 | ABF32167 |
| JNCNAFEI_1 | 353254 | 350948 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 94.41 | 99.22 | AAK74619 |
| JNCNAFEI_1 | 770514 | 769033 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 93.32 | 100.00 | ABJ54480 |
| JNCNAFEI_1 | 944352 | 946598 | metE | 0.0 | methionine biosynthesis enzymes | 93.19 | 100.00 | AAK74738 |
| JNCNAFEI_1 | 1626891 | 1625923 | spr0084 | 0.0 | pathogenitcity related | 92.88 | 98.48 | AAK98888 |
| JNCNAFEI_1 | 2148519 | 2147548 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 91.36 | 100.00 | ABF36968 |
| JNCNAFEI_1 | 1377447 | 1375717 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 89.95 | 100.00 | AAK34199 |
| JNCNAFEI_1 | 490475 | 491626 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.58 | 99.74 | AAL00050 |
| JNCNAFEI_1 | 527341 | 529329 | uvrB | 0.0 | excinuclease ABC, B subunit | 89.44 | 100.00 | AE014259_2 |
| JNCNAFEI_1 | 13636 | 15114 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.83 | 100.00 | ADE32434 |
| JNCNAFEI_1 | 1535623 | 1534322 | Eno | 0.0 | enolase | 86.44 | 99.77 | ABP90468 |
| JNCNAFEI_1 | 28984 | 30876 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.42 | 98.90 | ABP91129 |
| JNCNAFEI_1 | 949520 | 947811 | PGM | 0.0 | phosphoglucomutase | 84.94 | 99.65 | ACH87041 |
| JNCNAFEI_1 | 2110878 | 2109787 | recA | 0.0 | DNA recombination and repair | 84.37 | 95.36 | AAL00560 |
| JNCNAFEI_1 | 177145 | 176135 | pdh | 0.0 | pyruvate dehydrogenase | 83.38 | 99.70 | ABP91006 |
| JNCNAFEI_1 | 1083296 | 1081935 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.46 | 99.56 | ABP90420 |
| JNCNAFEI_1 | 1550041 | 1549151 | bglB | 2.70e-177 | putative phospho--glucosidase | 87.88 | 99.66 | AAK33487 |
| JNCNAFEI_1 | 988843 | 987893 | SP_0676 | 6.49e-169 | transcription facot | 81.39 | 98.45 | AAK74821 |
| JNCNAFEI_1 | 946788 | 947645 | metF | 9.41e-168 | methionine biosynthesis enzymes | 87.06 | 99.31 | AAK74739 |
| JNCNAFEI_1 | 830274 | 830945 | rr01 | 4.66e-126 | response regulator | 84.82 | 99.56 | CAB54566 |
| JNCNAFEI_1 | 1224919 | 1224215 | covR | 9.68e-126 | responder protein | 85.53 | 100.00 | AAK71319 |
| JNCNAFEI_1 | 953487 | 954158 | ciaR | 2.08e-124 | two component system response regulator | 86.16 | 99.12 | AIK75708 |
| JNCNAFEI_1 | 953487 | 954155 | CiaR | 3.85e-124 | two-component response regulator | 87.44 | 99.55 | AAK74935 |
| JNCNAFEI_1 | 1224919 | 1224215 | walR | 2.20e-119 | DNA-binding response regulator | 82.13 | 100.00 | ANC99504 |
| JNCNAFEI_1 | 1878821 | 1878135 | CovR | 4.75e-119 | serves to repress GAS virulence factor-encoding genes | 81.66 | 100.00 | ACE75886 |
| JNCNAFEI_1 | 2109614 | 2109219 | SpxA2 | 2.14e-74 | transcriptional regulator | 91.67 | 100.00 | ERL21461 |
| JNCNAFEI_1 | 1094759 | 1095160 | SpxA1 | 7.65e-69 | transcriptional regulator | 82.09 | 100.00 | ERL19273 |
| JNCNAFEI_1 | 2059500 | 2059087 | GrpE | 1.69e-66 | protein grpE | 81.88 | 80.59 | ABP89267 |
| JNCNAFEI_1 | 2043987 | 2043496 | RopE (M5005_Spy_1611) | 1.05e-71 | probable DNA-directed RNA polymerase subunit delta | 82.93 | 85.86 | AAK34603 |
| JNCNAFEI_1 | 353254 | 350954 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 83.09 | 98.08 | MYN69560 |
| JNCNAFEI_1 | 140457 | 141476 | 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 |
|---|---|---|---|
| JNCNAFEI_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)