Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 10 | 0 | 0 | 10.00 |
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. |
|---|---|---|---|---|---|---|---|---|
| GOMHBCIO_5 | 1434957 | 1436876 | tet(Q) | ARO:3000191 | tet(Q) | 96.38 | 97.26 | Z21523.1 |
| GOMHBCIO_5 | 1417709 | 1418494 | ErmF | ARO:3000498 | ErmF | 97.32 | 98.12 | M17124.1 |
| GOMHBCIO_5 | 1416250 | 1417389 | tet(X1) | ARO:3005166 | tet(X1) | 99.44 | 105.57 | AJ311171.1 |
| GOMHBCIO_5 | 1414915 | 1416051 | tet(X) | ARO:3000205 | tet(X) | 99.47 | 97.42 | M37699.1 |
| GOMHBCIO_5 | 1413876 | 1414739 | aadS | ARO:3004683 | aadS | 100.00 | 100.00 | M72415.1 |
| GOMHBCIO_5 | 1254774 | 1255739 | CfxA5 | ARO:3003096 | CfxA5 | 99.69 | 100.00 | AY769934.1 |
| GOMHBCIO_4 | 1441411 | 1442760 | tet(Q) | ARO:3000191 | tet(Q) | 97.74 | 68.34 | Z21523.1 |
| GOMHBCIO_3 | 233046 | 234374 | tet(Q) | ARO:3000191 | tet(Q) | 95.70 | 67.28 | 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. |
|---|---|---|---|---|---|---|---|
| GOMHBCIO_5 | 1414915 | 1416081 | tet(X) | Doxycycline, Tetracycline, Minocycline, Tigecycline | 99.83 | 100.00 | M37699 |
| GOMHBCIO_4 | 2165992 | 2166958 | cfxA5 | Unknown Beta-lactam | 99.79 | 100.00 | AY769934 |
| GOMHBCIO_5 | 1417695 | 1418494 | erm(F) | Erythromycin, Lincomycin, Clindamycin, Quinupristin, Pristinamycin IA, Virginiamycin S | 99.75 | 99.88 | M62487 |
| GOMHBCIO_3 | 1094529 | 1095496 | cfxA3 | Ampicillin | 99.59 | 100.00 | AF472622 |
| GOMHBCIO_3 | 1094529 | 1095496 | cfxA4 | Unknown Beta-lactam | 99.59 | 100.00 | AY769933 |
| GOMHBCIO_3 | 1094529 | 1095496 | cfxA | Cefoxitin, Ampicillin | 99.59 | 100.00 | U38243 |
| GOMHBCIO_3 | 233046 | 234974 | tet(Q) | Doxycycline, Tetracycline, Minocycline | 99.53 | 100.00 | X58717 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| GOMHBCIO_5 | 1413879 | 1414739 | aadS | aminoglycoside 6-adenylyltransferase AadS | EXACTX | 100.00 | 100.00 | WP_003013318.1 |
| GOMHBCIO_5 | 1414918 | 1416081 | tet(X2) | tetracycline-inactivating monooxygenase Tet(X2) | EXACTX | 100.00 | 100.00 | WP_008651082.1 |
| GOMHBCIO_5 | 1254774 | 1255736 | cfxA5 | broad-spectrum class A beta-lactamase CfxA5 | BLASTX | 99.69 | 100.00 | WP_032946415.1 |
| GOMHBCIO_5 | 1417700 | 1418491 | erm(F) | 23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(F) | BLASTX | 99.62 | 99.25 | WP_063844771.1 |
| GOMHBCIO_5 | 1416253 | 1417389 | tet(X1) | tetracycline-inactivating monooxygenase Tet(X1) | BLASTX | 99.47 | 100.00 | WP_204376222.1 |
| GOMHBCIO_5 | 1434957 | 1436861 | tet(Q) | tetracycline resistance ribosomal protection protein Tet(Q) | BLASTX | 99.37 | 99.06 | WP_004293868.1 |
| GOMHBCIO_3 | 233046 | 234971 | tet(Q) | tetracycline resistance ribosomal protection protein Tet(Q) | INTERNAL_STOP | 99.22 | 100.00 | WP_004293868.1 |
| GOMHBCIO_5 | 1436812 | 1438668 | tet(Q) | tetracycline resistance ribosomal protection protein Tet(Q) | INTERNAL_STOP | 94.51 | 94.19 | WP_063856408.1 |
| GOMHBCIO_4 | 1441432 | 1442760 | tet(Q) | tetracycline resistance ribosomal protection protein Tet(Q) | PARTIALX | 97.74 | 69.11 | WP_002560998.1 |
| GOMHBCIO_3 | 1094882 | 1095493 | cfxA | CfxA family broad-spectrum class A beta-lactamase | PARTIALX | 94.66 | 64.17 | WP_004339683.1 |
| GOMHBCIO_4 | 2166365 | 2166949 | cfxA6 | broad-spectrum class A beta-lactamase CfxA6 | PARTIALX | 85.13 | 60.94 | WP_117664257.1 |
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 |
|---|---|---|---|---|---|---|---|---|
| No hit found | ||||||||
BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)
Plasmid
PlasmidFinder
| Query ID | Begin | End | Plasmid | Query / Template | Identity | Accession no. |
|---|---|---|---|---|---|---|
| GOMHBCIO_1 | 1592 | 2172 | repUS2 | 584 / 681 | 80.48 | BFU30316 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| GOMHBCIO_1 | 1.0 | 0.0 | 1.0 |
| GOMHBCIO_2 | 1.0 | 0.0 | 1.0 |
| GOMHBCIO_3 | 0.0 | 1.0 | 0.0 |
| GOMHBCIO_4 | 0.0 | 1.0 | 0.0 |
| GOMHBCIO_5 | 0.0 | 1.0 | 0.0 |
| GOMHBCIO_6 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| GOMHBCIO_3 | 674784 | 679432 | False | Unknown | VOG4573, |
| GOMHBCIO_5 | 392723 | 404615 | False | Siphoviridae | VOG5235, |
| GOMHBCIO_5 | 666783 | 674147 | False | Siphoviridae | VOG4589, |
Phigaro v2.4.0 (Database: Jan. 2024 release)