Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 0 | 1 | 2.24 |
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. |
|---|---|---|---|---|---|---|---|---|
| CLLFOCLF_56 | 8320 | 10239 | tet(W) | ARO:3000194 | tet(W) | 96.87 | 100.00 | AJ222769.3 |
| CLLFOCLF_63 | 7066 | 7551 | lnuA | ARO:3002835 | lnuA | 97.52 | 100.00 | M14039.1 |
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. |
|---|---|---|---|---|---|---|---|
| CLLFOCLF_56 | 8320 | 10239 | tet(W) | Doxycycline, Tetracycline, Minocycline | 99.01 | 100.00 | FN396364 |
| CLLFOCLF_63 | 7066 | 7551 | lnu(A) | Lincomycin | 98.56 | 100.00 | M14039 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| CLLFOCLF_63 | 7066 | 7548 | lnu(A) | lincosamide nucleotidyltransferase Lnu(A) | EXACTX | 100.00 | 100.00 | WP_001829870.1 |
| CLLFOCLF_56 | 8320 | 10236 | tet(W) | tetracycline resistance ribosomal protection protein Tet(W) | EXACTX | 100.00 | 100.00 | WP_003672618.1 |
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 |
|---|---|---|---|---|---|---|---|---|
| CLLFOCLF_61 | 6065 | 5871 | CspA | 1.28e-28 | cold shock protein | 83.08 | 98.48 | CAA62903 |
BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)
Plasmid
PlasmidFinder
| Query ID | Begin | End | Plasmid | Query / Template | Identity | Accession no. |
|---|---|---|---|---|---|---|
| CLLFOCLF_56 | 3197 | 3973 | rep30 | 777 / 777 | 100.00 | CP002845 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| CLLFOCLF_46 | 1.0 | 0.0 | 1.0 |
| CLLFOCLF_47 | 1.0 | 0.0 | 1.0 |
| CLLFOCLF_48 | 1.0 | 0.0 | 1.0 |
| CLLFOCLF_49 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_50 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_51 | 1.0 | 0.0 | 1.0 |
| CLLFOCLF_52 | 1.0 | 0.0 | 1.0 |
| CLLFOCLF_53 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_54 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_55 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_56 | 1.0 | 0.0 | 1.0 |
| CLLFOCLF_57 | 1.0 | 0.0 | 1.0 |
| CLLFOCLF_58 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_60 | 1.0 | 0.0 | 1.0 |
| CLLFOCLF_61 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_62 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_63 | 1.0 | 0.0 | 1.0 |
| CLLFOCLF_64 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_65 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_66 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_67 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_68 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_69 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_70 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_72 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_73 | 1.0 | 0.0 | 1.0 |
| CLLFOCLF_74 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_75 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_76 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_77 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_78 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_79 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_80 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_81 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_82 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_83 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_84 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_85 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_86 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_87 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_88 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_89 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_90 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_91 | 0.0 | 1.0 | 0.0 |
| CLLFOCLF_92 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| CLLFOCLF_55 | 3181 | 14607 | True | Siphoviridae | VOG4544, VOG4556, VOG4573, VOG4553, VOG0204, VOG4589, VOG0641, VOG0221, VOG0221, VOG0221 |
| CLLFOCLF_76 | 1876 | 13478 | False | Siphoviridae | VOG4571, VOG4544, VOG4556, VOG4573, VOG4553, VOG0204, VOG4589, VOG0641, VOG9502 |
| CLLFOCLF_76 | 31876 | 36448 | False | Unknown | VOG7438, VOG1047, VOG0021, VOG0026 |
| CLLFOCLF_81 | 5516 | 21993 | False | Unknown | VOG0021, VOG1047, VOG7438, VOG0052, VOG11003, VOG9874, VOG0822, VOG0189, VOG2142, VOG1724, VOG4548 |
| CLLFOCLF_86 | 87013 | 98051 | False | Siphoviridae | VOG4999, VOG4632, VOG8353, VOG0650, VOG2687, VOG9667, VOG4821, VOG0275, VOG7188 |
| CLLFOCLF_87 | 55298 | 79955 | False | Siphoviridae | VOG3477, VOG0866, VOG9331, VOG0866, VOG4841, VOG4581, VOG4544, VOG4556, VOG4568, VOG4553, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG2225, VOG9471, VOG6163, VOG0801, VOG3462, VOG8438, VOG4705, VOG8917 |
| CLLFOCLF_91 | 95360 | 98964 | False | Myoviridae | VOG0384, VOG10104 |
Phigaro v2.4.0 (Database: Jan. 2024 release)