Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 2 | 0 | 2 | 2.83 |
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. |
|---|---|---|---|---|---|---|---|---|
| CHPCIHKC_63 | 283 | 1020 | ErmB | ARO:3000375 | ErmB | 98.78 | 98.79 | AF242872.1 |
| CHPCIHKC_43 | 3 | 617 | Streptococcus suis chloramphenicol acetyltransferase | ARO:3004455 | Ssui_ACT_CHL | 94.61 | 94.44 | AB080798.1 |
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. |
|---|---|---|---|---|---|---|---|
| CHPCIHKC_43 | 1 | 617 | cat(pC194) | Chloramphenicol | 100.00 | 94.78 | NC_002013 |
| CHPCIHKC_63 | 283 | 1020 | erm(B) | Erythromycin, Lincomycin, Clindamycin, Quinupristin, Pristinamycin IA, Virginiamycin S | 99.59 | 100.00 | X72021 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| CHPCIHKC_63 | 283 | 1017 | erm(B) | 23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(B) | BLASTX | 98.78 | 100.00 | WP_001038795.1 |
| CHPCIHKC_43 | 3 | 680 | cat-TC | type A-9 chloramphenicol O-acetyltransferase Cat-TC | INTERNAL_STOP | 92.07 | 94.54 | WP_032488880.1 |
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 |
|---|---|---|---|---|---|---|---|---|
| CHPCIHKC_4 | 21995 | 21288 | WalR | 1.73e-116 | transcriptional regulatory protein | 85.59 | 100.43 | EPH95667 |
| CHPCIHKC_12 | 50372 | 50569 | CspR | 2.18e-28 | cold shock protein | 81.82 | 100.00 | AAO82613 |
| CHPCIHKC_12 | 50372 | 50566 | CspA | 1.06e-27 | cold shock protein | 81.54 | 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. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| CHPCIHKC_1 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_2 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_3 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_4 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_5 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_6 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_7 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_8 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_9 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_10 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_11 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_12 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_13 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_14 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_15 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_16 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_17 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_18 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_19 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_20 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_21 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_22 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_23 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_24 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_25 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_26 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_27 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_28 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_29 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_30 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_31 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_32 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_33 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_34 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_35 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_36 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_37 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_38 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_39 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_40 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_41 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_42 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_43 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_45 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_46 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_47 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_49 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_50 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_52 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_53 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_54 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_55 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_56 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_57 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_58 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_61 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_62 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_63 | 1.0 | 0.0 | 1.0 |
| CHPCIHKC_67 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_78 | 0.0 | 1.0 | 0.0 |
| CHPCIHKC_89 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| CHPCIHKC_23 | 2891 | 8587 | False | Myoviridae | VOG0573, VOG4550, VOG4691, VOG4845, VOG5008, VOG9143, VOG1637 |
| CHPCIHKC_34 | 71046 | 91575 | False | Siphoviridae | VOG9667, VOG0010, VOG9667, VOG4552, VOG4502, VOG9454, VOG0535, VOG0322, VOG6545, VOG0514, VOG4799, VOG0025, VOG4693, VOG5545, VOG0198, VOG8681, VOG0796, VOG10227, VOG0720, VOG4564, VOG4555, VOG4711, VOG3435 |
Phigaro v2.4.0 (Database: Jan. 2024 release)