Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 2 | 8 | 8.49 |
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. |
|---|---|---|---|---|---|---|---|---|
| OKHLCPNJ_44 | 55148 | 56197 | clbA | ARO:3002814 | clbA | 99.71 | 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. |
|---|---|---|---|---|---|---|---|
| OKHLCPNJ_44 | 55162 | 56197 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 88.80 | 98.67 | KR610408 |
| OKHLCPNJ_35 | 40110 | 41486 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 86.86 | 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. |
|---|---|---|---|---|---|---|---|---|
| OKHLCPNJ_44 | 55151 | 56197 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 99.71 | 100.00 | WP_012116915.1 |
| OKHLCPNJ_35 | 40116 | 41486 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 86.43 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| OKHLCPNJ_25 | 358511 | 359692 | capB | 0.0 | Capsule | Immune modulation | 81.96 | 99.66 | NP_391471 |
| OKHLCPNJ_25 | 359707 | 360156 | capC | 2.11e-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 |
|---|---|---|---|---|---|---|---|---|
| OKHLCPNJ_31 | 31739 | 32875 | tufA | 0.0 | elongation factor Tu | 86.81 | 95.69 | AHM69299 |
| OKHLCPNJ_20 | 4373 | 5242 | pdxS | 2.62e-152 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.48 | 98.31 | ACE61268 |
| OKHLCPNJ_22 | 121536 | 122312 | CodY | 2.57e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| OKHLCPNJ_28 | 201753 | 202145 | spxA1 | 5.15e-70 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| OKHLCPNJ_44 | 69739 | 69542 | CspA | 1.59e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| OKHLCPNJ_10 | 165396 | 165202 | CspD | 1.44e-27 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| OKHLCPNJ_23 | 14047 | 14241 | CspB | 1.87e-27 | cold shock protein | 84.61 | 98.48 | CAD00094 |
| OKHLCPNJ_44 | 69739 | 69545 | CspR | 2.08e-26 | cold shock protein | 80.00 | 98.48 | AAO82613 |
| OKHLCPNJ_36 | 9265 | 10137 | lipA (SAUSA300_0829) | 5.61e-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. |
|---|---|---|---|---|---|---|
| OKHLCPNJ_2 | 3809 | 3995 | Col(SD853) | 187 / 194 | 86.63 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| OKHLCPNJ_1 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_2 | 1.0 | 0.0 | 1.0 |
| OKHLCPNJ_3 | 1.0 | 0.0 | 1.0 |
| OKHLCPNJ_4 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_5 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_6 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_7 | 1.0 | 0.0 | 1.0 |
| OKHLCPNJ_9 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_10 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_11 | 1.0 | 0.0 | 1.0 |
| OKHLCPNJ_12 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_13 | 1.0 | 0.0 | 1.0 |
| OKHLCPNJ_14 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_15 | 1.0 | 0.0 | 1.0 |
| OKHLCPNJ_18 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_19 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_20 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_22 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_23 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_24 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_25 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_27 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_28 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_29 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_30 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_31 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_33 | 1.0 | 0.0 | 1.0 |
| OKHLCPNJ_34 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_35 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_36 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_37 | 1.0 | 0.0 | 1.0 |
| OKHLCPNJ_38 | 1.0 | 0.0 | 1.0 |
| OKHLCPNJ_39 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_41 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_42 | 0.0 | 1.0 | 0.0 |
| OKHLCPNJ_44 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| OKHLCPNJ_10 | 32666 | 56728 | False | Siphoviridae | VOG0054, VOG8537, VOG4574, VOG4660, VOG9712, VOG5042, VOG3389, VOG4910, VOG9312, VOG0275, VOG7930, VOG8610, VOG5008, VOG3390, VOG7718 |
| OKHLCPNJ_10 | 115446 | 127114 | False | Siphoviridae | VOG6211, VOG0322, VOG7476, VOG0025, VOG4551, VOG0918 |
| OKHLCPNJ_23 | 52828 | 78458 | False | Siphoviridae | VOG10230, VOG0641, VOG4705, VOG3390, VOG4612, VOG4660, VOG4619, VOG0801, VOG6163, VOG0541, VOG4586, VOG0539, VOG0704, VOG4589, VOG0204, VOG5259, VOG4553, VOG4573, VOG4556, VOG4544, VOG0519, VOG0531, VOG0275, VOG0198, VOG6242, VOG10116, VOG4376 |
| OKHLCPNJ_24 | 6848 | 33135 | False | Myoviridae | VOG9667, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG3390, VOG4705 |
| OKHLCPNJ_24 | 293141 | 315155 | False | Siphoviridae | VOG3389, VOG4910, VOG5047, VOG0275, VOG7930, VOG8610, VOG4705, VOG3390, VOG7718, VOG10904, VOG3549, VOG0585 |
| OKHLCPNJ_35 | 139879 | 163755 | False | Siphoviridae | VOG0047, VOG10230, VOG0136, VOG5221, VOG4705, VOG0804, VOG4856, VOG4619, VOG3462, VOG0801, VOG6163, VOG5852, VOG4586, VOG0207, VOG4589, VOG0204, VOG4553, VOG4573, VOG4556, VOG4544, VOG4581, VOG4841 |
| OKHLCPNJ_35 | 231116 | 257232 | False | Myoviridae | VOG4972, VOG10230, VOG0136, VOG0753, VOG4705, VOG3390, VOG7718, VOG4845, VOG4691, VOG4550, VOG0573, VOG1348, VOG1433, VOG1956, VOG6163, VOG1350, VOG4699, VOG1352, VOG1883, VOG1881, VOG1353, VOG4623, VOG4564, VOG1643, VOG4572, VOG4555, VOG0045, VOG1183, VOG0720, VOG0796 |
| OKHLCPNJ_35 | 266042 | 271168 | False | Unknown | VOG0189, VOG4566, VOG1309, VOG4600, VOG9507 |
| OKHLCPNJ_36 | 147873 | 157281 | False | Siphoviridae | VOG3390, VOG4705, VOG8610, VOG4995, VOG3699, VOG0221, VOG5023, VOG0720, VOG4555, VOG4553, VOG4713 |
Phigaro v2.4.0 (Database: Jan. 2024 release)