Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 5 | 0 | 1 | 5.10 |
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. |
|---|---|---|---|---|---|---|---|---|
| GPLNNDIN_34 | 344785 | 345750 | CfxA2 | ARO:3003002 | CfxA2 | 100.00 | 100.00 | AF118110.1 |
| GPLNNDIN_8 | 10257 | 11462 | Mef(En2) | ARO:3004659 | Mef(En2) | 99.50 | 100.00 | AF251288.1 |
| GPLNNDIN_19 | 428 | 2089 | tet(Q) | ARO:3000191 | tet(Q) | 95.68 | 84.17 | Z21523.1 |
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. |
|---|---|---|---|---|---|---|---|
| GPLNNDIN_34 | 344785 | 345750 | cfxA3 | Ampicillin | 99.90 | 100.00 | AF472622 |
| GPLNNDIN_34 | 344785 | 345750 | cfxA4 | Unknown Beta-lactam | 99.90 | 100.00 | AY769933 |
| GPLNNDIN_34 | 344785 | 345750 | cfxA5 | Unknown Beta-lactam | 99.90 | 100.00 | AY769934 |
| GPLNNDIN_34 | 344785 | 345750 | cfxA | Cefoxitin, Ampicillin | 99.90 | 100.00 | U38243 |
| GPLNNDIN_19 | 428 | 2036 | tet(Q) | Doxycycline, Tetracycline, Minocycline | 99.63 | 83.54 | L33696 |
| GPLNNDIN_23 | 236337 | 237133 | erm(F) | Erythromycin, Lincomycin, Clindamycin, Quinupristin, Pristinamycin IA, Virginiamycin S | 91.47 | 99.50 | M17808 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| GPLNNDIN_34 | 344785 | 345747 | cfxA | CfxA family broad-spectrum class A beta-lactamase | EXACTX | 100.00 | 100.00 | WP_004339683.1 |
| GPLNNDIN_8 | 9723 | 10232 | lnu(AN2) | lincosamide nucleotidyltransferase Lnu(AN2) | EXACTX | 100.00 | 100.00 | WP_004308783.1 |
| GPLNNDIN_8 | 10260 | 11462 | mef(En2) | macrolide efflux MFS transporter Mef(En2) | BLASTX | 99.50 | 100.00 | WP_063853729.1 |
| GPLNNDIN_19 | 431 | 2026 | tet(Q) | tetracycline resistance ribosomal protection protein Tet(Q) | PARTIALX | 99.44 | 83.00 | WP_063856407.1 |
| GPLNNDIN_23 | 236337 | 237134 | erm(F) | 23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(F) | BLASTX | 89.85 | 100.00 | WP_002682030.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| No hit found | |||||||||
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 |
|---|---|---|---|---|---|---|---|---|
| GPLNNDIN_23 | 80547 | 78967 | GroEL | 0.0 | folding of newly synthesized proteins, preventing misfolding and aggregation | 86.91 | 96.70 | BAA04222 |
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 |
|---|---|---|---|
| GPLNNDIN_1 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_2 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_3 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_4 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_5 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_6 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_7 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_8 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_9 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_10 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_11 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_12 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_13 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_14 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_15 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_16 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_17 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_18 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_19 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_20 | 1.0 | 0.0 | 1.0 |
| GPLNNDIN_21 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_22 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_23 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_24 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_25 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_26 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_28 | 1.0 | 0.0 | 1.0 |
| GPLNNDIN_29 | 1.0 | 0.0 | 1.0 |
| GPLNNDIN_31 | 1.0 | 0.0 | 1.0 |
| GPLNNDIN_32 | 1.0 | 0.0 | 1.0 |
| GPLNNDIN_33 | 1.0 | 0.0 | 1.0 |
| GPLNNDIN_34 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_38 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_39 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_40 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_41 | 0.0 | 1.0 | 0.0 |
| GPLNNDIN_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 |
|---|---|---|---|---|---|
| GPLNNDIN_1 | 439593 | 443813 | False | Myoviridae | VOG4552, |
| GPLNNDIN_12 | 283635 | 289534 | False | Unknown | VOG4609, |
| GPLNNDIN_12 | 453718 | 466350 | False | Siphoviridae | VOG6280, |
| GPLNNDIN_38 | 163456 | 171414 | False | Unknown | VOG7407, |
Phigaro v2.4.0 (Database: Jan. 2024 release)