miRNA: 3'- -UGUCGAAGagauCGUCCAGG-----ACCCAG- -5'
miRNA: 3'- -UGUCGAAGagauCGUCCAgGACCCag -5'
miRNA: 3'- -UGU-CGa-----AGAGa-------UCGUCCAGGaCC-CAG- -5'
miRNA: 3'- -UGUC-GAAGAgau--CGUCCAGgACCCAG- -5'
miRNA: 3'- -UGUCGAAGAGAUCGUCCAGGACCCAG- -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 | |||||||
| 774 | 5' | -55.7 | NC_000852.3 | + | 188450 | 0.66 | 0.97926 |
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Target: 5'- gGCAGUUUCggc-GCGGGUUUuggcgUGGGUCu -3' miRNA: 3'- -UGUCGAAGagauCGUCCAGG-----ACCCAG- -5' |
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| 774 | 5' | -55.7 | NC_000852.3 | + | 227241 | 0.68 | 0.934791 |
|
Target: 5'- gGCAGCUUC----GCGGGUgCUGGGa- -3' miRNA: 3'- -UGUCGAAGagauCGUCCAgGACCCag -5' |
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| 774 | 5' | -55.7 | NC_000852.3 | + | 274004 | 0.68 | 0.934791 |
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Target: 5'- gGCAcGCgcucggUCUCggcacaggAGCAGGUCCcGGuGUCg -3' miRNA: 3'- -UGU-CGa-----AGAGa-------UCGUCCAGGaCC-CAG- -5' |
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| 774 | 5' | -55.7 | NC_000852.3 | + | 165638 | 0.69 | 0.895729 |
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Target: 5'- aACAGaCUUCUaaucuGUAGGUCgUGGGUUc -3' miRNA: 3'- -UGUC-GAAGAgau--CGUCCAGgACCCAG- -5' |
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| 774 | 5' | -55.7 | NC_000852.3 | + | 102840 | 1.09 | 0.005838 |
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Target: 5'- cACAGCUUCUCUAGCAGGUCCUGGGUCu -3' miRNA: 3'- -UGUCGAAGAGAUCGUCCAGGACCCAG- -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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