miRNA: 3'- uAUCAaAGAGUAGUUUGggUAAgAGa -5'
miRNA: 3'- -UAUCAA-------AGAgUAGUuUGGGuaAGAGa -5'
miRNA: 3'- uaucaAAGAGUAGuuUGGGUAAGAGa -5'
miRNA: 3'- uauCAAAGAGUAGuUUGGGUAAGAGa -5'
miRNA: 3'- -UAUCAAAGAGUAGUUUGGGUAAGAGA- -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 | |||||||
| 11674 | 5' | -44.1 | NC_003102.1 | + | 127679 | 0.67 | 0.999972 |
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Target: 5'- cUAGUaUCUCAUCAAACagGUUgUCg -3' miRNA: 3'- uAUCAaAGAGUAGUUUGggUAAgAGa -5' |
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| 11674 | 5' | -44.1 | NC_003102.1 | + | 64129 | 0.67 | 0.999971 |
|
Target: 5'- cGUAGUUacaagacUCUgGUCGuGCCCggUCUCa -3' miRNA: 3'- -UAUCAA-------AGAgUAGUuUGGGuaAGAGa -5' |
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| 11674 | 5' | -44.1 | NC_003102.1 | + | 108518 | 0.7 | 0.999101 |
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Target: 5'- ----cUUUUCAUCuuGCCCGUUCUUg -3' miRNA: 3'- uaucaAAGAGUAGuuUGGGUAAGAGa -5' |
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| 11674 | 5' | -44.1 | NC_003102.1 | + | 58997 | 0.76 | 0.956493 |
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Target: 5'- --cGUUUCUCGUCcAACCUGUUCUUg -3' miRNA: 3'- uauCAAAGAGUAGuUUGGGUAAGAGa -5' |
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| 11674 | 5' | -44.1 | NC_003102.1 | + | 98475 | 1.07 | 0.048177 |
|
Target: 5'- cAUAGUUUCUCAUCAAACCCAUUCUCUu -3' miRNA: 3'- -UAUCAAAGAGUAGUUUGGGUAAGAGA- -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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