Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 0 | 24 | 34 | 41.62 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| IKNLLDKJ_45 | 128400 | 128993 | STR_RS05880 | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | WP_011226149 |
| IKNLLDKJ_56 | 30550 | 31809 | STER_RS07100 | 0.0 | Capsule | Immune modulation | 99.92 | 100.00 | WP_011681445 |
| IKNLLDKJ_45 | 128400 | 128993 | STER_RS06030 | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | WP_011226149 |
| IKNLLDKJ_45 | 128400 | 128993 | STU_RS15260 | 0.0 | Capsule | Immune modulation | 99.83 | 100.00 | WP_011226149 |
| IKNLLDKJ_78 | 77301 | 78959 | fbp54 | 0.0 | FBPs | Adherence | 99.58 | 100.00 | WP_011227179 |
| IKNLLDKJ_20 | 495 | 1334 | cbpD | 0.0 | Autolysin | Exoenzyme | 99.52 | 100.00 | WP_011226733 |
| IKNLLDKJ_56 | 28591 | 29559 | STER_RS07090 | 0.0 | Capsule | Immune modulation | 99.48 | 100.00 | WP_011681443 |
| IKNLLDKJ_45 | 127531 | 128400 | rfbA | 0.0 | Capsule | Immune modulation | 99.42 | 100.00 | WP_011681286 |
| IKNLLDKJ_56 | 29577 | 30553 | STER_RS07095 | 0.0 | Capsule | Immune modulation | 99.28 | 99.90 | WP_011681444 |
| IKNLLDKJ_12 | 56417 | 57157 | STER_RS05305 | 0.0 | Capsule | Immune modulation | 99.19 | 100.00 | WP_011681174 |
| IKNLLDKJ_12 | 57868 | 58599 | STER_RS05315 | 0.0 | Capsule | Immune modulation | 98.91 | 100.00 | WP_011681176 |
| IKNLLDKJ_56 | 27874 | 28589 | STER_RS07085 | 0.0 | Capsule | Immune modulation | 98.88 | 99.86 | WP_011681442 |
| IKNLLDKJ_45 | 92870 | 93631 | srtA | 0.0 | Sortase A | Exoenzyme | 98.82 | 100.00 | - |
| IKNLLDKJ_56 | 31928 | 32779 | rfbD | 0.0 | Capsule | Immune modulation | 98.71 | 100.00 | WP_014621820 |
| IKNLLDKJ_12 | 56417 | 57157 | STU_RS14635 | 0.0 | Capsule | Immune modulation | 98.65 | 100.00 | WP_011226046 |
| IKNLLDKJ_12 | 57868 | 58599 | STU_RS14645 | 0.0 | Capsule | Immune modulation | 98.63 | 100.00 | WP_011226048 |
| IKNLLDKJ_4 | 44218 | 45008 | cshA | 0.0 | Cell surface hydrophobicity proteins | Adherence | 98.61 | 99.87 | - |
| IKNLLDKJ_12 | 57868 | 58599 | STR_RS05260 | 0.0 | Capsule | Immune modulation | 98.50 | 100.00 | WP_011227248 |
| IKNLLDKJ_12 | 56422 | 57157 | STR_RS05250 | 0.0 | Capsule | Immune modulation | 98.37 | 98.13 | WP_011227246 |
| IKNLLDKJ_12 | 58600 | 60060 | STER_RS05320 | 0.0 | Capsule | Immune modulation | 97.81 | 100.00 | WP_011681177 |
| IKNLLDKJ_12 | 53752 | 54747 | STU_RS14625* | 0.0 | Capsule | Immune modulation | 97.69 | 99.90 | - |
| IKNLLDKJ_56 | 26758 | 27528 | STER_RS07075 | 0.0 | Capsule | Immune modulation | 97.67 | 99.23 | WP_011681440 |
| IKNLLDKJ_12 | 58600 | 60060 | STU_RS14650 | 0.0 | Capsule | Immune modulation | 97.33 | 100.21 | WP_011226049 |
| IKNLLDKJ_12 | 53294 | 53743 | STU_RS14620 | 0.0 | Capsule | Immune modulation | 96.89 | 100.00 | WP_011226042 |
| IKNLLDKJ_12 | 58600 | 60060 | STR_RS05265 | 0.0 | Capsule | Immune modulation | 96.51 | 100.21 | WP_041827043 |
| IKNLLDKJ_12 | 54995 | 56360 | STER_RS05300 | 0.0 | Capsule | Immune modulation | 96.27 | 99.85 | WP_011681173 |
| IKNLLDKJ_12 | 54993 | 56360 | STU_RS14630 | 0.0 | Capsule | Immune modulation | 95.32 | 100.00 | WP_011226045 |
| IKNLLDKJ_3 | 57270 | 62223 | SSU98_0978 | 0.0 | Agglutinin receptor | Adherence | 94.91 | 100.00 | YP_001200536 |
| IKNLLDKJ_3 | 57270 | 62223 | SSU05_0965 | 0.0 | Agglutinin receptor | Adherence | 94.89 | 100.00 | YP_001198331 |
| IKNLLDKJ_3 | 57328 | 62223 | SAG_RS09105 | 0.0 | Agglutinin receptor | Adherence | 94.59 | 100.00 | WP_000167699 |
| IKNLLDKJ_12 | 57167 | 57859 | STER_RS05310 | 0.0 | Capsule | Immune modulation | 89.90 | 100.00 | WP_011681175 |
| IKNLLDKJ_3 | 22691 | 23994 | eno | 0.0 | Streptococcal enolase | Exoenzyme | 88.02 | 99.54 | WP_000022832 |
| IKNLLDKJ_12 | 57167 | 57859 | STU_RS14640 | 0.0 | Capsule | Immune modulation | 87.30 | 100.00 | WP_011226047 |
| IKNLLDKJ_12 | 57167 | 57859 | STR_RS05255 | 0.0 | Capsule | Immune modulation | 87.01 | 100.00 | WP_011227247 |
| IKNLLDKJ_19 | 14446 | 15456 | plr/gapA | 0.0 | Streptococcal plasmin receptor/GAPDH | Adherence | 86.73 | 99.51 | WP_002986042 |
| IKNLLDKJ_45 | 129422 | 130468 | rfbB | 0.0 | Capsule | Immune modulation | 83.30 | 99.90 | WP_002263087 |
| IKNLLDKJ_34 | 5043 | 6326 | tig/ropA | 0.0 | Trigger factor | Stress survival | 80.58 | 99.77 | WP_000107753 |
| IKNLLDKJ_12 | 52987 | 53294 | STU_RS14615 | 4.30e-136 | Capsule | Immune modulation | 95.45 | 63.37 | WP_011226041 |
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 |
|---|---|---|---|---|---|---|---|---|
| IKNLLDKJ_45 | 90183 | 89200 | ldh(Sp_1220) | 0.0 | L-lactate dehydrogenase | 94.82 | 100.00 | AAK75326 |
| IKNLLDKJ_13 | 20852 | 21925 | MntE | 0.0 | manganese homeostasis | 94.41 | 99.72 | ABF32167 |
| IKNLLDKJ_3 | 57292 | 62220 | B9H01_RS04765 | 0.0 | glucan-binding protein | 94.28 | 100.00 | AUS90958 |
| IKNLLDKJ_23 | 61270 | 60302 | spr0084 | 0.0 | pathogenitcity related | 93.19 | 98.48 | AAK98888 |
| IKNLLDKJ_1 | 107148 | 104845 | pfl2(Sp_0459) | 0.0 | formate acetyltransferase | 92.97 | 99.22 | AAK74619 |
| IKNLLDKJ_45 | 10561 | 9080 | SPD_0310 | 0.0 | UPF0371 protein SPD_0310 | 92.11 | 100.00 | ABJ54480 |
| IKNLLDKJ_17 | 13127 | 15373 | metE | 0.0 | methionine biosynthesis enzymes | 91.86 | 100.00 | AAK74738 |
| IKNLLDKJ_24 | 1921 | 923 | recA | 0.0 | DNA recombination and repair | 91.29 | 85.82 | AAL00560 |
| IKNLLDKJ_18 | 3529 | 4500 | prsA2 | 0.0 | ribose-phosphate pyrophosphokinase | 90.12 | 100.00 | ABF36968 |
| IKNLLDKJ_56 | 81131 | 79980 | potA | 0.0 | ABC transporter ATP-binding protein-spermidine/putrescine transport | 89.32 | 99.74 | AAL00050 |
| IKNLLDKJ_56 | 45818 | 43830 | uvrB | 0.0 | excinuclease ABC, B subunit | 88.99 | 100.00 | AE014259_2 |
| IKNLLDKJ_45 | 106381 | 108111 | ptsI | 0.0 | phosphoenolpyruvate-protein phosphotransferase | 87.69 | 100.00 | AAK34199 |
| IKNLLDKJ_89 | 51009 | 49531 | IMPDH | 0.0 | inosine-5'-monophosphate dehydrogenase | 87.42 | 100.00 | ADE32434 |
| IKNLLDKJ_3 | 22691 | 23992 | Eno | 0.0 | enolase | 86.21 | 99.77 | ABP90468 |
| IKNLLDKJ_89 | 36274 | 34382 | gidA | 0.0 | tRNA uridine 5-carboxymethylaminomethyl modification enzyme | 85.89 | 98.90 | ABP91129 |
| IKNLLDKJ_17 | 18298 | 16589 | PGM | 0.0 | phosphoglucomutase | 84.06 | 99.65 | ACH87041 |
| IKNLLDKJ_2 | 21736 | 22746 | pdh | 0.0 | pyruvate dehydrogenase | 83.09 | 99.70 | ABP91006 |
| IKNLLDKJ_78 | 46041 | 47402 | mnmE | 0.0 | central tRNA-modifying GTPase | 82.02 | 99.56 | ABP90420 |
| IKNLLDKJ_2 | 72000 | 70108 | PepO | 0.0 | endopeptidase | 80.03 | 100.00 | ABF32980 |
| IKNLLDKJ_3 | 8247 | 9137 | bglB | 5.11e-180 | putative phospho--glucosidase | 88.89 | 99.66 | AAK33487 |
| IKNLLDKJ_8 | 11901 | 10966 | SP_0676 | 1.79e-169 | transcription facot | 81.73 | 96.89 | AAK74821 |
| IKNLLDKJ_17 | 15565 | 16422 | metF | 1.55e-166 | methionine biosynthesis enzymes | 86.01 | 99.31 | AAK74739 |
| IKNLLDKJ_12 | 96802 | 96098 | covR | 1.05e-131 | responder protein | 85.11 | 100.00 | AAK71319 |
| IKNLLDKJ_45 | 37796 | 38467 | rr01 | 2.11e-124 | response regulator | 83.48 | 99.56 | CAB54566 |
| IKNLLDKJ_11 | 29811 | 29125 | CiaR | 1.56e-122 | two-component response regulator | 85.15 | 101.79 | AAK74935 |
| IKNLLDKJ_12 | 96802 | 96098 | walR | 4.56e-122 | DNA-binding response regulator | 81.70 | 100.00 | ANC99504 |
| IKNLLDKJ_11 | 29811 | 29122 | ciaR | 6.60e-121 | two component system response regulator | 83.04 | 101.33 | AIK75708 |
| IKNLLDKJ_5 | 17581 | 18267 | CovR | 2.99e-119 | serves to repress GAS virulence factor-encoding genes | 80.79 | 100.00 | ACE75886 |
| IKNLLDKJ_24 | 647 | 273 | SpxA2 | 4.79e-72 | transcriptional regulator | 91.20 | 94.70 | ERL21461 |
| IKNLLDKJ_78 | 34802 | 34401 | SpxA1 | 1.87e-67 | transcriptional regulator | 80.60 | 100.00 | ERL19273 |
| IKNLLDKJ_5 | 40005 | 40292 | spr0479 | 4.23e-49 | essential gene | 86.46 | 98.97 | AAK99283 |
| IKNLLDKJ_23 | 91834 | 91580 | spr1327 | 2.19e-45 | essential gene | 95.29 | 100.00 | AAL00131 |
| IKNLLDKJ_89 | 2649 | 2912 | spr0175 | 3.01e-42 | pathogenitcity related | 84.09 | 100.00 | AAK98979 |
| IKNLLDKJ_89 | 3476 | 3742 | spr0177 | 9.06e-34 | essential gene | 84.27 | 88.12 | AAK98981 |
| IKNLLDKJ_34 | 6484 | 6984 | RopE (M5005_Spy_1611) | 1.19e-75 | probable DNA-directed RNA polymerase subunit delta | 80.84 | 87.43 | AAK34603 |
| IKNLLDKJ_1 | 107148 | 104851 | PFL (B9H01_RS01125) | 0.0 | formate C-acetyltransferase | 82.94 | 98.08 | MYN69560 |
| IKNLLDKJ_2 | 57597 | 56578 | 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. |
|---|---|---|---|---|---|---|
| IKNLLDKJ_28 | 1048 | 1995 | rep37 | 950 / 948 | 94.84 | AF177167 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| IKNLLDKJ_1 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_2 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_3 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_4 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_5 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_6 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_7 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_8 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_9 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_10 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_11 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_12 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_13 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_14 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_15 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_16 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_17 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_18 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_19 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_20 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_21 | 1.0 | 0.0 | 1.0 |
| IKNLLDKJ_22 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_23 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_24 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_25 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_26 | 1.0 | 0.0 | 1.0 |
| IKNLLDKJ_28 | 1.0 | 0.0 | 1.0 |
| IKNLLDKJ_29 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_30 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_31 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_32 | 1.0 | 0.0 | 1.0 |
| IKNLLDKJ_33 | 1.0 | 0.0 | 1.0 |
| IKNLLDKJ_34 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_35 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_36 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_45 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_56 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_67 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_78 | 0.0 | 1.0 | 0.0 |
| IKNLLDKJ_89 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| IKNLLDKJ_12 | 112027 | 152680 | False | Siphoviridae | VOG3300, VOG3299, VOG3436, VOG4649, VOG0054, VOG0641, VOG3298, VOG4782, VOG0647, VOG4599, VOG4605, VOG4545, VOG0209, VOG4586, VOG0207, VOG0205, VOG0204, VOG4553, VOG4573, VOG4556, VOG0202, VOG1886, VOG4581, VOG4841, VOG0198, VOG0658, VOG0658, VOG0044, VOG5439, VOG0657, VOG0152, VOG6140, VOG6414, VOG0656, VOG3468, VOG0655, VOG4609, VOG4632, VOG6545, VOG0322, VOG6419, VOG6420, VOG0321, VOG0651, VOG0650, VOG3622, VOG6127, VOG4602 |
Phigaro v2.4.0 (Database: Jan. 2024 release)