Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 22 | 29 | 36.40 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| NCCHMDNG_1 | 1360659 | 1361918 | STER_RS07100 | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011681445 |
| NCCHMDNG_1 | 1127032 | 1127625 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011226149 |
| NCCHMDNG_1 | 43633 | 44472 | cbpD | 0.0 | Autolysin | Exoenzyme | 99.88 | 100.00 | WP_011226733 |
| NCCHMDNG_1 | 1127032 | 1127625 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | WP_011226149 |
| NCCHMDNG_1 | 1127032 | 1127625 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | WP_011226149 |
| NCCHMDNG_1 | 1359686 | 1360662 | STER_RS07095 | 0.0 | Capsule | Immune modulation | 99.59 | 99.90 | WP_011681444 |
| NCCHMDNG_1 | 908921 | 910579 | fbp54 | 0.0 | FBPs | Adherence | 99.52 | 100.00 | WP_011227179 |
| NCCHMDNG_1 | 1358700 | 1359668 | STER_RS07090 | 0.0 | Capsule | Immune modulation | 99.28 | 100.00 | WP_011681443 |
| NCCHMDNG_1 | 1162392 | 1163153 | srtA | 0.0 | Sortase A | Exoenzyme | 99.21 | 100.00 | - |
| NCCHMDNG_1 | 1127625 | 1128494 | rfbA | 0.0 | Capsule | Immune modulation | 99.08 | 100.00 | WP_011681286 |
| NCCHMDNG_1 | 1082211 | 1083001 | cshA | 0.0 | Cell surface hydrophobicity proteins | Adherence | 98.99 | 100.00 | - |
| NCCHMDNG_1 | 1015811 | 1016542 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 98.50 | 100.00 | WP_011227248 |
| NCCHMDNG_1 | 1016543 | 1018003 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 98.49 | 100.00 | WP_011681177 |
| NCCHMDNG_1 | 1357983 | 1358698 | STER_RS07085 | 0.0 | Capsule | Immune modulation | 98.32 | 99.86 | WP_011681442 |
| NCCHMDNG_1 | 1356867 | 1357637 | STER_RS07075 | 0.0 | Capsule | Immune modulation | 98.18 | 99.23 | WP_011681440 |
| NCCHMDNG_1 | 1015811 | 1016542 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 97.81 | 100.00 | WP_011226048 |
| NCCHMDNG_1 | 1015811 | 1016542 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 97.54 | 100.00 | WP_011681176 |
| NCCHMDNG_1 | 1016543 | 1018003 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 97.47 | 100.21 | WP_011226049 |
| NCCHMDNG_1 | 1362037 | 1362888 | rfbD | 0.0 | Capsule | Immune modulation | 97.30 | 100.00 | WP_014621820 |
| NCCHMDNG_1 | 637154 | 642049 | SAG_RS09105 | 0.0 | Agglutinin receptor | Adherence | 96.88 | 100.00 | WP_000167699 |
| NCCHMDNG_1 | 1014360 | 1015100 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 96.76 | 100.00 | WP_011681174 |
| NCCHMDNG_1 | 1016543 | 1018003 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 96.65 | 100.21 | WP_041827043 |
| NCCHMDNG_1 | 1014360 | 1015100 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 96.49 | 100.00 | WP_011226046 |
| NCCHMDNG_1 | 1014365 | 1015100 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 96.20 | 98.13 | WP_011227246 |
| NCCHMDNG_1 | 1015110 | 1015802 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 95.81 | 100.00 | WP_011227247 |
| NCCHMDNG_1 | 1015110 | 1015802 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 95.81 | 100.00 | WP_011226047 |
| NCCHMDNG_1 | 637106 | 642049 | SSU98_0978 | 0.0 | Agglutinin receptor | Adherence | 95.79 | 99.82 | YP_001200536 |
| NCCHMDNG_1 | 637106 | 642049 | SSU05_0965 | 0.0 | Agglutinin receptor | Adherence | 95.77 | 99.82 | YP_001198331 |
| NCCHMDNG_1 | 1012936 | 1014303 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 95.61 | 100.00 | WP_011226045 |
| NCCHMDNG_1 | 1012938 | 1014303 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 94.29 | 99.85 | WP_011681173 |
| NCCHMDNG_1 | 1015110 | 1015802 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 89.75 | 100.00 | WP_011681175 |
| NCCHMDNG_1 | 602412 | 603715 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.09 | 99.54 | WP_000022832 |
| NCCHMDNG_1 | 1665237 | 1666247 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 86.92 | 99.51 | WP_002986042 |
| NCCHMDNG_1 | 139140 | 140423 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.65 | 99.77 | WP_000107753 |
| NCCHMDNG_1 | 1125557 | 1126603 | rfbB | 0.0 | Capsule | Immune modulation | 80.61 | 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 |
|---|---|---|---|---|---|---|---|---|
| NCCHMDNG_1 | 637133 | 642046 | B9H01_RS04765 | 0.0 | glucan-binding protein | 96.34 | 99.70 | AUS90958 |
| NCCHMDNG_1 | 1165840 | 1166823 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 94.82 | 100.00 | AAK75326 |
| NCCHMDNG_1 | 768990 | 770063 | MntE | 0.0 | manganese homeostasis | 94.13 | 99.72 | ABF32167 |
| NCCHMDNG_1 | 518856 | 519824 | spr0084 | 0.0 | pathogenitcity related | 93.19 | 98.48 | AAK98888 |
| NCCHMDNG_1 | 1542664 | 1544967 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 93.10 | 99.22 | AAK74619 |
| NCCHMDNG_1 | 1259090 | 1260571 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 92.11 | 100.00 | ABJ54480 |
| NCCHMDNG_1 | 789512 | 791758 | metE | 0.0 | methionine biosynthesis enzymes | 91.99 | 100.00 | AAK74738 |
| NCCHMDNG_1 | 63263 | 64261 | recA | 0.0 | DNA recombination and repair | 91.29 | 85.82 | AAL00560 |
| NCCHMDNG_1 | 27150 | 28121 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 90.12 | 100.00 | ABF36968 |
| NCCHMDNG_1 | 1412799 | 1411648 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.32 | 99.74 | AAL00050 |
| NCCHMDNG_1 | 1375927 | 1373939 | uvrB | 0.0 | excinuclease ABC, B subunit | 88.99 | 100.00 | AE014259_2 |
| NCCHMDNG_1 | 1149644 | 1147914 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 88.04 | 100.00 | AAK34199 |
| NCCHMDNG_1 | 1854282 | 1852804 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.63 | 100.00 | ADE32434 |
| NCCHMDNG_1 | 602412 | 603713 | Eno | 0.0 | enolase | 86.21 | 99.77 | ABP90468 |
| NCCHMDNG_1 | 1839059 | 1837167 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 86.05 | 98.90 | ABP91129 |
| NCCHMDNG_1 | 794683 | 792974 | PGM | 0.0 | phosphoglucomutase | 83.89 | 99.65 | ACH87041 |
| NCCHMDNG_1 | 1707209 | 1708219 | pdh | 0.0 | pyruvate dehydrogenase | 83.09 | 99.70 | ABP91006 |
| NCCHMDNG_1 | 935780 | 934419 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.24 | 99.56 | ABP90420 |
| NCCHMDNG_1 | 1757529 | 1755637 | PepO | 0.0 | endopeptidase | 80.19 | 100.00 | ABF32980 |
| NCCHMDNG_1 | 587983 | 588873 | bglB | 5.50e-178 | putative phospho--glucosidase | 88.55 | 99.66 | AAK33487 |
| NCCHMDNG_1 | 854174 | 853236 | SP_0676 | 8.27e-168 | transcription facot | 81.47 | 97.20 | AAK74821 |
| NCCHMDNG_1 | 791950 | 792807 | metF | 8.70e-165 | methionine biosynthesis enzymes | 86.36 | 99.31 | AAK74739 |
| NCCHMDNG_1 | 1054570 | 1053866 | covR | 6.81e-131 | responder protein | 85.53 | 100.00 | AAK71319 |
| NCCHMDNG_1 | 1231483 | 1230812 | rr01 | 4.20e-125 | response regulator | 84.38 | 99.56 | CAB54566 |
| NCCHMDNG_1 | 1054570 | 1053866 | walR | 3.22e-121 | DNA-binding response regulator | 81.70 | 100.00 | ANC99504 |
| NCCHMDNG_1 | 288071 | 288757 | CovR | 1.01e-117 | serves to repress GAS virulence factor-encoding genes | 80.79 | 100.00 | ACE75886 |
| NCCHMDNG_1 | 798637 | 799305 | CiaR | 7.15e-117 | two-component response regulator | 83.86 | 99.55 | AAK74935 |
| NCCHMDNG_1 | 798637 | 799308 | ciaR | 7.11e-115 | two component system response regulator | 81.70 | 99.12 | AIK75708 |
| NCCHMDNG_1 | 64537 | 64932 | SpxA2 | 3.73e-74 | transcriptional regulator | 90.91 | 100.00 | ERL21461 |
| NCCHMDNG_1 | 140581 | 141081 | RopE (M5005_Spy_1611) | 9.94e-75 | probable DNA-directed RNA polymerase subunit delta | 80.84 | 87.43 | AAK34603 |
| NCCHMDNG_1 | 1542664 | 1544961 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 83.07 | 98.08 | MYN69560 |
| NCCHMDNG_1 | 1743072 | 1742053 | ilvC (SPD_0406) | 0.0 | ketol-acid reductoisomerase (NADP(+)) | 96.47 | 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 |
|---|---|---|---|
| NCCHMDNG_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 |
|---|---|---|---|---|---|
| NCCHMDNG_1 | 658975 | 661864 | False | Unknown | VOG9403, VOG9404, VOG6396, VOG6396, VOG9405 |
Phigaro v2.4.0 (Database: Jan. 2024 release)