Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 1 | 7 | 7.35 |
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. |
|---|---|---|---|---|---|---|---|---|
| JJMFCGGI_13 | 41178 | 42227 | clbA | ARO:3002814 | clbA | 97.99 | 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. |
|---|---|---|---|---|---|---|---|
| JJMFCGGI_13 | 41178 | 42213 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 88.42 | 98.67 | KR610408 |
| JJMFCGGI_1 | 341271 | 342647 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 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. |
|---|---|---|---|---|---|---|---|---|
| JJMFCGGI_13 | 41178 | 42221 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 98.28 | 99.71 | WP_012116915.1 |
| JJMFCGGI_1 | 341271 | 342641 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| JJMFCGGI_4 | 156378 | 157559 | capB | 0.0 | Capsule | Immune modulation | 82.04 | 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 |
|---|---|---|---|---|---|---|---|---|
| JJMFCGGI_23 | 28115 | 26979 | tufA | 0.0 | elongation factor Tu | 86.54 | 95.69 | AHM69299 |
| JJMFCGGI_40 | 4351 | 5220 | pdxS | 1.35e-152 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| JJMFCGGI_3 | 212850 | 212074 | CodY | 3.51e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| JJMFCGGI_21 | 37935 | 38327 | spxA1 | 1.43e-70 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| JJMFCGGI_13 | 10419 | 10616 | CspA | 5.56e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| JJMFCGGI_7 | 35615 | 35809 | CspD | 4.04e-28 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| JJMFCGGI_7 | 35615 | 35812 | CspB | 8.39e-28 | cold shock protein | 80.30 | 100.00 | CAD00094 |
| JJMFCGGI_13 | 10419 | 10613 | CspR | 7.28e-27 | cold shock protein | 80.00 | 98.48 | AAO82613 |
| JJMFCGGI_2 | 97428 | 96556 | lipA (SAUSA300_0829) | 6.91e-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. |
|---|---|---|---|---|---|---|
| JJMFCGGI_45 | 2159 | 2326 | Col(SD853) | 168 / 194 | 86.90 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| JJMFCGGI_1 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_2 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_3 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_4 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_5 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_6 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_7 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_8 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_9 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_10 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_11 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_12 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_13 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_14 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_15 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_16 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_17 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_18 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_19 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_20 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_21 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_22 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_23 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_24 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_25 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_26 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_27 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_28 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_29 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_30 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_31 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_32 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_33 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_34 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_35 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_36 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_37 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_38 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_39 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_40 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_41 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_42 | 1.0 | 0.0 | 1.0 |
| JJMFCGGI_43 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_44 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_45 | 1.0 | 0.0 | 1.0 |
| JJMFCGGI_46 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_47 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_48 | 0.0 | 1.0 | 0.0 |
| JJMFCGGI_49 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| JJMFCGGI_1 | 274066 | 277579 | False | Unknown | VOG0650, VOG4566, VOG0189, VOG6931, VOG6587 |
| JJMFCGGI_1 | 281584 | 307607 | False | Siphoviridae | VOG4376, VOG6242, VOG0198, VOG0275, VOG9029, VOG4841, VOG0713, VOG4581, VOG1886, VOG3607, VOG4556, VOG4568, VOG4553, VOG10223, VOG0204, VOG1266, VOG0539, VOG0704, VOG4586, VOG0541, VOG5910, VOG0801, VOG4772, VOG4660, VOG4612, VOG3390, VOG7896, VOG0641, VOG4707 |
| JJMFCGGI_9 | 76238 | 100854 | False | Myoviridae | VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG3390, VOG4705 |
Phigaro v2.4.0 (Database: Jan. 2024 release)