Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 11 | 10 | 9 | 17.38 |
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. |
|---|---|---|---|---|---|---|---|---|
| IPFFCMEA_27 | 84623 | 84961 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| IPFFCMEA_27 | 84306 | 84623 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| IPFFCMEA_4 | 46431 | 47024 | tmrB | ARO:3003059 | tmrB | 100.00 | 100.00 | AL009126.3 |
| IPFFCMEA_20 | 28635 | 30278 | vmlR | ARO:3004476 | vmlR | 98.32 | 100.00 | NC_000964.3 |
| IPFFCMEA_12 | 27209 | 29779 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| IPFFCMEA_17 | 20748 | 21917 | bmr | ARO:3003007 | bmr | 99.49 | 100.00 | M33768.1 |
| IPFFCMEA_63 | 20734 | 22167 | lmrB | ARO:3002813 | lmrB | 99.16 | 100.00 | JYFL01000006.1 |
| IPFFCMEA_47 | 15756 | 16676 | mphK | ARO:3004541 | mphK | 98.68 | 100.00 | CP010314.1 |
| IPFFCMEA_39 | 7888 | 8739 | aadK | ARO:3002627 | aadK | 98.24 | 99.65 | AL009126.1 |
| IPFFCMEA_115 | 6846 | 8048 | blt | ARO:3003006 | blt | 99.25 | 100.00 | L32599.1 |
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. |
|---|---|---|---|---|---|---|---|
| IPFFCMEA_39 | 7888 | 8739 | aadK | Streptomycin | 98.48 | 99.65 | M26879 |
| IPFFCMEA_47 | 15756 | 16676 | mph(K) | Spiramycin, Telithromycin | 98.05 | 100.00 | NC_000964 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| IPFFCMEA_47 | 15756 | 16664 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.68 | 99.02 | WP_003246254.1 |
| IPFFCMEA_39 | 7891 | 8739 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| IPFFCMEA_20 | 28635 | 30275 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 96.71 | 99.82 | WP_003234144.1 |
| IPFFCMEA_21 | 17249 | 17641 | satA | streptothricin N-acetyltransferase SatA | PARTIALX | 91.60 | 75.72 | WP_003242546.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| IPFFCMEA_64 | 810 | 1991 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| IPFFCMEA_34 | 107778 | 108563 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| IPFFCMEA_64 | 2474 | 3616 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| IPFFCMEA_5 | 49816 | 51579 | dep/capD | 0.0 | Capsule | Immune modulation | 98.98 | 100.00 | NP_389723 |
| IPFFCMEA_34 | 103953 | 104891 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.94 | 100.00 | NP_391077 |
| IPFFCMEA_52 | 88833 | 89474 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 98.91 | 100.00 | NP_390062 |
| IPFFCMEA_64 | 2006 | 2455 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| IPFFCMEA_34 | 106556 | 107752 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.75 | 100.00 | NP_391079 |
| IPFFCMEA_34 | 96797 | 103933 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.56 | 100.00 | NP_391076 |
| IPFFCMEA_34 | 104919 | 106538 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.28 | 100.00 | NP_391078 |
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 |
|---|---|---|---|---|---|---|---|---|
| IPFFCMEA_30 | 31659 | 32795 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| IPFFCMEA_77 | 4340 | 5209 | pdxS | 1.12e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| IPFFCMEA_10 | 74187 | 74963 | CodY | 1.27e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| IPFFCMEA_14 | 81033 | 81602 | ClpP | 7.57e-100 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| IPFFCMEA_65 | 23297 | 23689 | spxA1 | 4.11e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| IPFFCMEA_65 | 23297 | 23689 | spx | 2.45e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| IPFFCMEA_23 | 26882 | 26640 | SpoVG | 6.43e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| IPFFCMEA_28 | 75875 | 76072 | CspA | 3.36e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| IPFFCMEA_52 | 77602 | 77408 | CspD | 1.01e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| IPFFCMEA_44 | 30193 | 29999 | CspB | 5.07e-28 | cold shock protein | 83.08 | 98.48 | 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. |
|---|---|---|---|---|---|---|
| IPFFCMEA_61 | 21 | 515 | rep21 | 495 / 717 | 90.51 | FR821780 |
| IPFFCMEA_61 | 8054 | 8218 | Col(SD853) | 165 / 194 | 86.06 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| IPFFCMEA_1 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_2 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_3 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_4 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_5 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_6 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_7 | 1.0 | 0.0 | 1.0 |
| IPFFCMEA_8 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_9 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_10 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_11 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_12 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_13 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_14 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_15 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_16 | 1.0 | 0.0 | 1.0 |
| IPFFCMEA_17 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_18 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_19 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_20 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_21 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_22 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_23 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_24 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_25 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_26 | 1.0 | 0.0 | 1.0 |
| IPFFCMEA_27 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_28 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_29 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_30 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_31 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_32 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_33 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_34 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_35 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_36 | 1.0 | 0.0 | 1.0 |
| IPFFCMEA_37 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_38 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_39 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_40 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_41 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_42 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_44 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_45 | 1.0 | 0.0 | 1.0 |
| IPFFCMEA_46 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_47 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_48 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_49 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_50 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_51 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_52 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_53 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_54 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_55 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_56 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_57 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_59 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_60 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_61 | 1.0 | 0.0 | 1.0 |
| IPFFCMEA_62 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_63 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_64 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_65 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_66 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_67 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_68 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_69 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_70 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_71 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_72 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_73 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_74 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_75 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_76 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_77 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_78 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_79 | 1.0 | 0.0 | 1.0 |
| IPFFCMEA_80 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_81 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_82 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_83 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_84 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_85 | 1.0 | 0.0 | 1.0 |
| IPFFCMEA_86 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_87 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_88 | 1.0 | 0.0 | 1.0 |
| IPFFCMEA_89 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_90 | 1.0 | 0.0 | 1.0 |
| IPFFCMEA_91 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_92 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_93 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_94 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_95 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_99 | 1.0 | 0.0 | 1.0 |
| IPFFCMEA_100 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_101 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_102 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_103 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_104 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_105 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_106 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_107 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_108 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_109 | 1.0 | 0.0 | 1.0 |
| IPFFCMEA_110 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_111 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_112 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_113 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_114 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_115 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_116 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_117 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_118 | 1.0 | 0.0 | 1.0 |
| IPFFCMEA_119 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_120 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_122 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_123 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_124 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_125 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_126 | 1.0 | 0.0 | 1.0 |
| IPFFCMEA_128 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_129 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_130 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_132 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_133 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_134 | 0.0 | 1.0 | 0.0 |
| IPFFCMEA_135 | 1.0 | 0.0 | 1.0 |
| IPFFCMEA_138 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| IPFFCMEA_25 | 466 | 21001 | False | Siphoviridae | VOG4619, VOG0801, VOG6163, VOG5910, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG5361, VOG4553, VOG4573, VOG4556, VOG0202, VOG1886, VOG4581, VOG4841, VOG0713, VOG0198, VOG1985 |
| IPFFCMEA_25 | 22996 | 31188 | False | Siphoviridae | VOG4566, VOG0186, VOG8233, VOG4603, VOG4552, VOG0650, VOG9667, VOG9667, VOG4602 |
| IPFFCMEA_27 | 114425 | 140588 | False | Myoviridae | VOG0753, VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490 |
Phigaro v2.4.0 (Database: Jan. 2024 release)