miRNA: 3'- aauaaUC-GACUGa-GCUUCUCGAUUGg -5'
miRNA: 3'- aauaaUCGa--CUGAGcUUCUCGAUUGG- -5'
miRNA: 3'- -AAUAAUCGACUGAGCUUCUCGAUUGG- -5'
miRNA: 3'- aauaAUCgaCUGA--GCUUCUcGAUUGG- -5'
miRNA: 3'- aauaAUCGaCUGag----CUUCUCGAUUGg -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 |
| Predicted miRNA align pattern | |||||||
| 33639 | 5' | -45.8 | NC_007610.1 | + | 130582 | 0.67 | 0.999672 |
|
Target: 5'- ----aAGaCUGACaaUGAGGAGCUAACa -3' miRNA: 3'- aauaaUC-GACUGa-GCUUCUCGAUUGg -5' |
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| 33639 | 5' | -45.8 | NC_007610.1 | + | 127675 | 0.69 | 0.997734 |
|
Target: 5'- ----gAGCggaGACUUaGAGAGCUGACUu -3' miRNA: 3'- aauaaUCGa--CUGAGcUUCUCGAUUGG- -5' |
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| 33639 | 5' | -45.8 | NC_007610.1 | + | 127558 | 1.12 | 0.015359 |
|
Target: 5'- aUUAUUAGCUGACUCGAAGAGCUAACCu -3' miRNA: 3'- -AAUAAUCGACUGAGCUUCUCGAUUGG- -5' |
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| 33639 | 5' | -45.8 | NC_007610.1 | + | 44849 | 0.66 | 0.999849 |
|
Target: 5'- ---cUAGgaGACUacCGAGGA-CUAACCg -3' miRNA: 3'- aauaAUCgaCUGA--GCUUCUcGAUUGG- -5' |
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| 33639 | 5' | -45.8 | NC_007610.1 | + | 20418 | 0.7 | 0.995426 |
|
Target: 5'- ---gUAGCaGACgaguuaGAAGAGCUAACa -3' miRNA: 3'- aauaAUCGaCUGag----CUUCUCGAUUGg -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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