Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 2 | 7 | 7.55 |
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. |
|---|---|---|---|---|---|---|---|---|
| GFCJCCHF_13 | 58265 | 59314 | 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. |
|---|---|---|---|---|---|---|---|
| GFCJCCHF_13 | 58279 | 59314 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 88.80 | 98.67 | KR610408 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| GFCJCCHF_13 | 58268 | 59314 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 99.71 | 100.00 | WP_012116915.1 |
| GFCJCCHF_8 | 71369 | 73963 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.23 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| GFCJCCHF_9 | 86776 | 87957 | capB | 0.0 | Capsule | Immune modulation | 81.97 | 99.58 | NP_391471 |
| GFCJCCHF_9 | 87972 | 88421 | capC | 6.21e-115 | 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 |
|---|---|---|---|---|---|---|---|---|
| GFCJCCHF_16 | 31613 | 32749 | tufA | 0.0 | elongation factor Tu | 86.81 | 95.69 | AHM69299 |
| GFCJCCHF_30 | 12444 | 11575 | pdxS | 1.35e-152 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| GFCJCCHF_5 | 143772 | 144548 | CodY | 3.20e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| GFCJCCHF_4 | 253003 | 253395 | spxA1 | 6.27e-70 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| GFCJCCHF_13 | 81744 | 81547 | CspA | 4.93e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| GFCJCCHF_25 | 22596 | 22790 | CspD | 9.28e-29 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| GFCJCCHF_25 | 22596 | 22793 | CspB | 1.92e-28 | cold shock protein | 80.30 | 100.00 | CAD00094 |
| GFCJCCHF_13 | 81744 | 81550 | CspR | 6.46e-27 | cold shock protein | 80.00 | 98.48 | AAO82613 |
| GFCJCCHF_2 | 138032 | 137160 | lipA (SAUSA300_0829) | 1.44e-162 | 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 |
|---|---|---|---|
| GFCJCCHF_1 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_2 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_3 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_4 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_5 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_6 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_7 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_8 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_9 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_10 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_11 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_12 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_13 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_14 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_15 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_16 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_17 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_18 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_19 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_20 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_21 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_22 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_23 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_24 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_25 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_26 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_27 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_28 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_29 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_30 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_31 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_32 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_33 | 1.0 | 0.0 | 1.0 |
| GFCJCCHF_34 | 1.0 | 0.0 | 1.0 |
| GFCJCCHF_36 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_37 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_38 | 1.0 | 0.0 | 1.0 |
| GFCJCCHF_39 | 1.0 | 0.0 | 1.0 |
| GFCJCCHF_40 | 1.0 | 0.0 | 1.0 |
| GFCJCCHF_41 | 0.0 | 1.0 | 0.0 |
| GFCJCCHF_42 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| GFCJCCHF_19 | 20094 | 45897 | False | Myoviridae | VOG0753, VOG4705, VOG3390, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG4545, VOG3892, VOG3891, VOG3890, VOG10055, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189 |
Phigaro v2.4.0 (Database: Jan. 2024 release)