Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 1 | 6 | 6.40 |
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. |
|---|---|---|---|---|---|---|---|---|
| KMIKKMPP_3 | 173263 | 174312 | clbA | ARO:3002814 | clbA | 97.42 | 100.00 | CP006845.1 |
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. |
|---|---|---|---|---|---|---|---|
| KMIKKMPP_3 | 173263 | 174298 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 87.64 | 98.67 | KR610408 |
| KMIKKMPP_1 | 369789 | 371165 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 86.64 | 100.00 | X08034 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| KMIKKMPP_3 | 173263 | 174306 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 97.70 | 99.71 | WP_012116915.1 |
| KMIKKMPP_1 | 369789 | 371159 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 86.65 | 99.78 | WP_003242953.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| KMIKKMPP_2 | 235545 | 236726 | capB | 0.0 | Capsule | Immune modulation | 82.29 | 99.66 | NP_391471 |
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 |
|---|---|---|---|---|---|---|---|---|
| KMIKKMPP_9 | 27984 | 26848 | tufA | 0.0 | elongation factor Tu | 86.54 | 95.69 | AHM69299 |
| KMIKKMPP_13 | 12455 | 11586 | pdxS | 8.75e-153 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| KMIKKMPP_1 | 1330795 | 1330019 | CodY | 2.48e-124 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| KMIKKMPP_1 | 1848009 | 1847617 | spxA1 | 4.54e-69 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| KMIKKMPP_3 | 143265 | 143462 | CspA | 1.30e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| KMIKKMPP_3 | 143265 | 143459 | CspR | 1.70e-26 | cold shock protein | 80.00 | 98.48 | AAO82613 |
| KMIKKMPP_5 | 30078 | 30950 | lipA (SAUSA300_0829) | 5.38e-163 | lipoic acid synthetase | 80.82 | 95.41 | ABD22039 |
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 |
|---|---|---|---|
| KMIKKMPP_1 | 0.0 | 1.0 | 0.0 |
| KMIKKMPP_2 | 0.0 | 1.0 | 0.0 |
| KMIKKMPP_3 | 0.0 | 1.0 | 0.0 |
| KMIKKMPP_4 | 0.0 | 1.0 | 0.0 |
| KMIKKMPP_5 | 0.0 | 1.0 | 0.0 |
| KMIKKMPP_6 | 0.0 | 1.0 | 0.0 |
| KMIKKMPP_7 | 0.0 | 1.0 | 0.0 |
| KMIKKMPP_8 | 0.0 | 1.0 | 0.0 |
| KMIKKMPP_9 | 0.0 | 1.0 | 0.0 |
| KMIKKMPP_10 | 0.0 | 1.0 | 0.0 |
| KMIKKMPP_11 | 0.0 | 1.0 | 0.0 |
| KMIKKMPP_12 | 0.0 | 1.0 | 0.0 |
| KMIKKMPP_13 | 0.0 | 1.0 | 0.0 |
| KMIKKMPP_14 | 0.0 | 1.0 | 0.0 |
| KMIKKMPP_15 | 0.0 | 1.0 | 0.0 |
| KMIKKMPP_17 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| KMIKKMPP_1 | 780968 | 808281 | False | Siphoviridae | VOG2703, VOG4581, VOG1886, VOG4556, VOG4568, VOG4553, VOG5361, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG6163, VOG0801, VOG4619, VOG4660, VOG4612, VOG3390, VOG7896, VOG0641, VOG10230 |
| KMIKKMPP_1 | 1705876 | 1731534 | False | Myoviridae | VOG0753, VOG4705, VOG3390, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189 |
| KMIKKMPP_11 | 586 | 21148 | False | Siphoviridae | VOG7896, VOG3390, VOG4612, VOG4660, VOG4772, VOG0801, VOG5910, VOG0541, VOG4586, VOG0704, VOG0539, VOG1266, VOG0204, VOG10223, VOG4553, VOG4568, VOG4556, VOG3607, VOG1886, VOG4581, VOG0713 |
Phigaro v2.4.0 (Database: Jan. 2024 release)