Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 4 | 0 | 1 | 4.12 |
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. |
|---|---|---|---|---|---|---|---|---|
| NLIIHIGN_92 | 8730 | 9287 | lnuA | ARO:3002835 | lnuA | 97.52 | 114.91 | M14039.1 |
| NLIIHIGN_92 | 6590 | 8509 | tet(W) | ARO:3000194 | tet(W) | 97.18 | 100.00 | AJ222769.3 |
| NLIIHIGN_109 | 1128 | 2585 | AAC(6')-Ie-APH(2'')-Ia bifunctional protein | ARO:3002597 | AAC6_Ie_APH2_Ia | 99.79 | 101.25 | GU565967.1 |
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. |
|---|---|---|---|---|---|---|---|
| NLIIHIGN_122 | 2811 | 3677 | ant(6)-Ia | Streptomycin | 100.00 | 100.00 | KF864551 |
| NLIIHIGN_109 | 1170 | 2585 | aac(6')-aph(2'') | Gentamicin, Tobramycin, Netilmicin, Kanamycin, Amikacin, Dibekacin, Isepamicin, Fortimicin, Streptomycin | 99.93 | 98.33 | M13771 |
| NLIIHIGN_109 | 1170 | 2585 | aph(2'')-Ia | Amikacin, Gentamicin, Tobramycin, Kanamycin | 99.93 | 95.93 | AP009486 |
| NLIIHIGN_92 | 6590 | 8509 | tet(W) | Doxycycline, Tetracycline, Minocycline | 99.11 | 100.00 | FN396364 |
| NLIIHIGN_92 | 8802 | 9287 | lnu(A) | Lincomycin | 98.77 | 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. |
|---|---|---|---|---|---|---|---|---|
| NLIIHIGN_122 | 2811 | 3674 | aadE | aminoglycoside 6-adenylyltransferase AadE | EXACTX | 100.00 | 100.00 | WP_001255868.1 |
| NLIIHIGN_92 | 8802 | 9284 | lnu(A) | lincosamide nucleotidyltransferase Lnu(A) | EXACTX | 100.00 | 100.00 | WP_001829870.1 |
| NLIIHIGN_92 | 6590 | 8506 | tet(W) | tetracycline resistance ribosomal protection protein Tet(W) | EXACTX | 100.00 | 100.00 | WP_000691721.1 |
| NLIIHIGN_109 | 1149 | 2585 | aac(6')-Ie/aph(2'')-Ia | bifunctional aminoglycoside N-acetyltransferase AAC(6')-Ie/aminoglycoside O-phosphotransferase APH(2'')-Ia | BLASTX | 98.54 | 97.56 | WP_012655884.1 |
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 |
|---|---|---|---|---|---|---|---|---|
| NLIIHIGN_33 | 17324 | 17130 | CspA | 5.12e-29 | cold shock protein | 84.61 | 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 |
|---|---|---|---|
| NLIIHIGN_1 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_2 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_3 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_5 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_6 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_7 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_8 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_9 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_10 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_11 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_12 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_13 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_14 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_15 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_16 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_18 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_19 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_21 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_22 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_23 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_28 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_29 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_30 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_31 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_32 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_33 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_34 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_35 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_36 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_37 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_38 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_39 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_40 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_41 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_42 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_43 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_44 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_45 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_46 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_47 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_48 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_49 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_50 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_51 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_52 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_53 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_54 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_55 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_56 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_57 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_58 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_59 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_60 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_61 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_62 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_63 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_64 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_65 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_66 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_67 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_68 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_69 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_70 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_71 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_72 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_73 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_74 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_75 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_76 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_77 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_78 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_79 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_80 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_81 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_82 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_83 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_84 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_85 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_86 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_87 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_88 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_89 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_90 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_91 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_92 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_93 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_94 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_95 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_96 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_97 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_98 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_99 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_100 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_101 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_102 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_103 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_104 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_105 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_106 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_107 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_108 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_109 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_110 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_111 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_112 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_113 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_114 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_115 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_116 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_117 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_118 | 0.0 | 1.0 | 0.0 |
| NLIIHIGN_119 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_120 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_121 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_122 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_123 | 1.0 | 0.0 | 1.0 |
| NLIIHIGN_124 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| NLIIHIGN_41 | 9355 | 18243 | False | Siphoviridae | VOG0207, VOG0205, VOG0204, VOG4553, VOG4573, VOG4556, VOG1886, VOG4581, VOG4841 |
| NLIIHIGN_47 | 9487 | 30925 | False | Siphoviridae | VOG1422, VOG4618, VOG0612, VOG10227, VOG5821, VOG7554, VOG0720, VOG4564, VOG4555, VOG1329, VOG4713, VOG9583, VOG0724, VOG0799, VOG0725, VOG4545, VOG0801, VOG3462 |
| NLIIHIGN_113 | 3530 | 29175 | True | Siphoviridae | VOG0350, VOG9671, VOG0221, VOG0221, VOG9502, VOG0641, VOG4589, VOG0204, VOG4553, VOG4573, VOG4556, VOG4544, VOG4571, VOG4581, VOG8909, VOG0198, VOG4548, VOG0327, VOG4606, VOG0026, VOG0021, VOG1047, VOG7438 |
Phigaro v2.4.0 (Database: Jan. 2024 release)