Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 4 | 2 | 6 | 7.48 |
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. |
|---|---|---|---|---|---|---|---|---|
| CDNJIAFK_7 | 48117 | 49163 | clbA | ARO:3002814 | clbA | 92.77 | 99.71 | 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. |
|---|---|---|---|---|---|---|---|
| CDNJIAFK_7 | 48120 | 49163 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 88.90 | 99.33 | KR610408 |
| CDNJIAFK_1 | 444298 | 445674 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 87.36 | 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. |
|---|---|---|---|---|---|---|---|---|
| CDNJIAFK_7 | 48120 | 49163 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 92.24 | 99.71 | WP_012116915.1 |
| CDNJIAFK_1 | 444304 | 445674 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 87.09 | 99.78 | WP_003242953.1 |
| CDNJIAFK_7 | 50914 | 51432 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 82.66 | 100.00 | WP_003242546.1 |
| CDNJIAFK_4 | 17720 | 20317 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.06 | 100.00 | WP_087347987.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| CDNJIAFK_10 | 497667 | 498848 | capB | 0.0 | Capsule | Immune modulation | 81.87 | 99.66 | NP_391471 |
| CDNJIAFK_10 | 497203 | 497652 | capC | 3.25e-114 | Capsule | Immune modulation | 83.59 | 99.78 | NP_391470 |
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 |
|---|---|---|---|---|---|---|---|---|
| CDNJIAFK_9 | 32034 | 33170 | tufA | 0.0 | elongation factor Tu | 86.54 | 95.69 | AHM69299 |
| CDNJIAFK_19 | 12393 | 11524 | pdxS | 6.39e-153 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| CDNJIAFK_4 | 221442 | 220666 | CodY | 7.64e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| CDNJIAFK_4 | 663595 | 663203 | spxA1 | 1.21e-69 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| CDNJIAFK_7 | 65665 | 65468 | CspA | 3.19e-32 | cold shock protein | 92.42 | 100.00 | CAA62903 |
| CDNJIAFK_1 | 104797 | 104991 | CspD | 1.76e-27 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| CDNJIAFK_1 | 104797 | 104994 | CspB | 3.64e-27 | cold shock protein | 80.30 | 100.00 | CAD00094 |
| CDNJIAFK_7 | 65665 | 65471 | CspR | 1.58e-26 | cold shock protein | 80.00 | 98.48 | AAO82613 |
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 |
|---|---|---|---|
| CDNJIAFK_1 | 0.0 | 1.0 | 0.0 |
| CDNJIAFK_2 | 0.0 | 1.0 | 0.0 |
| CDNJIAFK_3 | 0.0 | 1.0 | 0.0 |
| CDNJIAFK_4 | 0.0 | 1.0 | 0.0 |
| CDNJIAFK_5 | 0.0 | 1.0 | 0.0 |
| CDNJIAFK_6 | 0.0 | 1.0 | 0.0 |
| CDNJIAFK_7 | 0.0 | 1.0 | 0.0 |
| CDNJIAFK_8 | 0.0 | 1.0 | 0.0 |
| CDNJIAFK_9 | 0.0 | 1.0 | 0.0 |
| CDNJIAFK_10 | 0.0 | 1.0 | 0.0 |
| CDNJIAFK_11 | 0.0 | 1.0 | 0.0 |
| CDNJIAFK_12 | 0.0 | 1.0 | 0.0 |
| CDNJIAFK_15 | 0.0 | 1.0 | 0.0 |
| CDNJIAFK_16 | 0.0 | 1.0 | 0.0 |
| CDNJIAFK_17 | 0.0 | 1.0 | 0.0 |
| CDNJIAFK_18 | 0.0 | 1.0 | 0.0 |
| CDNJIAFK_19 | 0.0 | 1.0 | 0.0 |
| CDNJIAFK_20 | 1.0 | 0.0 | 1.0 |
| CDNJIAFK_22 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| CDNJIAFK_1 | 579575 | 607123 | False | Siphoviridae | VOG0705, VOG6116, VOG8440, VOG0602, VOG4574, VOG5221, VOG4705, VOG6243, VOG4612, VOG4660, VOG4619, VOG0801, VOG6163, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG5601, VOG4553, VOG4573, VOG4556, VOG4544, VOG4581, VOG6154, VOG0531 |
| CDNJIAFK_1 | 615775 | 621913 | False | Myoviridae / Siphoviridae | VOG4799, VOG0052, VOG4567, VOG0020, VOG8043, VOG4724 |
| CDNJIAFK_1 | 658594 | 680441 | False | Myoviridae | VOG3490, VOG2703, VOG10230, VOG0136, VOG0753, VOG7895, VOG3390, VOG7718, VOG4845, VOG4691, VOG4550, VOG0573, VOG1348, VOG1433, VOG1956, VOG6163, VOG4699, VOG1352, VOG1883, VOG1881, VOG1353, VOG4623, VOG4564, VOG1643, VOG4572, VOG4555 |
| CDNJIAFK_4 | 545139 | 571695 | False | Myoviridae | VOG0753, VOG7895, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189 |
| CDNJIAFK_8 | 3 | 27252 | False | Siphoviridae | VOG0796, VOG10227, VOG0720, VOG4564, VOG6778, VOG4555, VOG1329, VOG2621, VOG5872, VOG4623, VOG0816, VOG5660, VOG0724, VOG0799, VOG0725, VOG4545, VOG4605, VOG4599, VOG3390, VOG5535, VOG0641, VOG10230, VOG10380, VOG6422, VOG3490, VOG4666 |
Phigaro v2.4.0 (Database: Jan. 2024 release)