Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 4 | 1 | 4 | 5.74 |
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. |
|---|---|---|---|---|---|---|---|---|
| LNEOGEMI_40 | 37534 | 38304 | ANT(4')-Ib | ARO:3003905 | ANT(4')-Ib | 94.14 | 100.00 | EF540343.1 |
| LNEOGEMI_43 | 35017 | 35862 | Erm(34) | ARO:3000600 | Erm(34) | 98.58 | 100.00 | AY234334.1 |
| LNEOGEMI_45 | 5955 | 7007 | clbC | ARO:3002816 | clbC | 97.14 | 100.00 | AP006627.1 |
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. |
|---|---|---|---|---|---|---|---|
| LNEOGEMI_43 | 35017 | 35862 | erm(34) | Erythromycin, Lincomycin, Clindamycin, Quinupristin, Pristinamycin IA, Virginiamycin S | 97.87 | 100.00 | AY234334 |
| LNEOGEMI_40 | 37534 | 38304 | ant(4')-Ib | Amikacin, Tobramycin, Isepamicin, Dibekacin | 94.16 | 100.00 | AJ506108 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| LNEOGEMI_43 | 35017 | 35859 | erm(34) | 23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(34) | BLASTX | 98.58 | 100.00 | WP_063844504.1 |
| LNEOGEMI_45 | 5955 | 7004 | clbB | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbB | BLASTX | 97.14 | 100.00 | WP_011245929.1 |
| LNEOGEMI_40 | 34218 | 35120 | blaBCL | BCL family class A beta-lactamase | BLASTX | 96.68 | 100.00 | WP_065825670.1 |
| LNEOGEMI_40 | 37537 | 38304 | aadD2 | aminoglycoside O-nucleotidyltransferase ANT(4')-Ib | BLASTX | 94.14 | 100.00 | WP_035202393.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| LNEOGEMI_35 | 17993 | 18643 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 96.77 | 100.00 | WP_011247375 |
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 |
|---|---|---|---|---|---|---|---|---|
| LNEOGEMI_10 | 32581 | 33723 | tufA | 0.0 | elongation factor Tu | 87.14 | 96.19 | AHM69299 |
| LNEOGEMI_42 | 36203 | 36445 | SpoVG | 1.70e-37 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| LNEOGEMI_36 | 21361 | 21164 | CspA | 4.31e-31 | cold shock protein | 86.36 | 100.00 | CAA62903 |
| LNEOGEMI_28 | 156503 | 156315 | CspB | 2.18e-25 | cold shock protein | 82.54 | 95.45 | CAD00094 |
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 |
|---|---|---|---|
| LNEOGEMI_1 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_2 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_3 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_4 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_5 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_6 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_7 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_8 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_9 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_10 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_11 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_12 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_13 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_14 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_15 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_16 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_17 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_18 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_19 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_20 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_21 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_22 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_23 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_24 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_25 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_26 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_27 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_28 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_30 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_31 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_32 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_34 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_35 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_36 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_37 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_38 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_39 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_40 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_41 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_42 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_43 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_44 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_45 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_46 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_47 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_49 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_50 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_54 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_55 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_56 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_58 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_59 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_60 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_63 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_64 | 1.0 | 0.0 | 1.0 |
| LNEOGEMI_65 | 1.0 | 0.0 | 1.0 |
| LNEOGEMI_66 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_67 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_68 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_70 | 1.0 | 0.0 | 1.0 |
| LNEOGEMI_71 | 1.0 | 0.0 | 1.0 |
| LNEOGEMI_72 | 1.0 | 0.0 | 1.0 |
| LNEOGEMI_73 | 1.0 | 0.0 | 1.0 |
| LNEOGEMI_74 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_75 | 1.0 | 0.0 | 1.0 |
| LNEOGEMI_76 | 1.0 | 0.0 | 1.0 |
| LNEOGEMI_77 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_82 | 1.0 | 0.0 | 1.0 |
| LNEOGEMI_83 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_84 | 1.0 | 0.0 | 1.0 |
| LNEOGEMI_86 | 1.0 | 0.0 | 1.0 |
| LNEOGEMI_88 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_89 | 1.0 | 0.0 | 1.0 |
| LNEOGEMI_90 | 0.0 | 1.0 | 0.0 |
| LNEOGEMI_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 |
|---|---|---|---|---|---|
| LNEOGEMI_22 | 53348 | 83503 | False | Siphoviridae | VOG1936, VOG0535, VOG6931, VOG6414, VOG0468, VOG5353, VOG8520, VOG4602, VOG1521, VOG0866, VOG6116, VOG0018, VOG0992, VOG0641, VOG4619, VOG4660, VOG0801, VOG4910, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG7168, VOG4553, VOG4568, VOG4556, VOG5051, VOG4544, VOG4581, VOG4841, VOG10137 |
Phigaro v2.4.0 (Database: Jan. 2024 release)