miRNA: 3'- -GGGGGacACCGGGGuGGAGGgcuCGA- -5'
miRNA: 3'- -GGGGG--ACA---------CCGGGGugGAGGGCUCGA- -5'
miRNA: 3'- gGGGGACACCGGGguGGagggCUCGA- -5'
miRNA: 3'- gGGGGACaCCGGGGUGga-GGGcUCGa -5'
miRNA: 3'- -GGGGGACACCGGGGUGGAGGGCUCGA- -5'
Results 1 - 5 of 5 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 13037 | 3' | -64.5 | NC_003390.1 | + | 34137 | 0.66 | 0.266273 |
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Target: 5'- uCCCCCcaUGGCCCC-CCUCUgcuGCUg -3' miRNA: 3'- -GGGGGacACCGGGGuGGAGGgcuCGA- -5' |
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| 13037 | 3' | -64.5 | NC_003390.1 | + | 30821 | 0.66 | 0.241462 |
|
Target: 5'- uCUUCCgaUGUauucaguauGGCCCCugUUUCCGGGCUa -3' miRNA: 3'- -GGGGG--ACA---------CCGGGGugGAGGGCUCGA- -5' |
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| 13037 | 3' | -64.5 | NC_003390.1 | + | 2189 | 0.66 | 0.241462 |
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Target: 5'- aCCCCUGUGGCCUguCUga--GGGCUu -3' miRNA: 3'- gGGGGACACCGGGguGGagggCUCGA- -5' |
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| 13037 | 3' | -64.5 | NC_003390.1 | + | 43768 | 0.68 | 0.202703 |
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Target: 5'- gCUCCUGaGGCCCCACaggCCCcGGUg -3' miRNA: 3'- gGGGGACaCCGGGGUGga-GGGcUCGa -5' |
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| 13037 | 3' | -64.5 | NC_003390.1 | + | 29536 | 1.08 | 0.000125 |
|
Target: 5'- gCCCCCUGUGGCCCCACCUCCCGAGCUg -3' miRNA: 3'- -GGGGGACACCGGGGUGGAGGGCUCGA- -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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