miRNA: 3'- -GGACC---------UCCUGGUGGUGAuc--CU-GGACc -5'
miRNA: 3'- -GGACCuCCUGgug--GUGA-------UCCUGGACC- -5'
miRNA: 3'- gGACC--UCCUGGUGGUG--AUCcUGGacc -5'
miRNA: 3'- -GGACCUCCUGG------UGGUG------------AUCCUGGaCC- -5'
Results 41 - 44 of 44 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 | |||||||
| 31659 | 5' | -56.6 | NC_006883.1 | + | 211620 | 0.69 | 0.888685 |
|
Target: 5'- uCCUGGugcuacucuAGGACCACCACUccaaGAuCCUGc -3' miRNA: 3'- -GGACC---------UCCUGGUGGUGAuc--CU-GGACc -5' |
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| 31659 | 5' | -56.6 | NC_006883.1 | + | 212118 | 0.66 | 0.964728 |
|
Target: 5'- uUCUGGuGGAUauggaUACUuaaguagAGGACCUGGa -3' miRNA: 3'- -GGACCuCCUGgug--GUGA-------UCCUGGACC- -5' |
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| 31659 | 5' | -56.6 | NC_006883.1 | + | 213907 | 0.67 | 0.942784 |
|
Target: 5'- aCUGGuaAGGACCACCAUugUAGaGCCa-- -3' miRNA: 3'- gGACC--UCCUGGUGGUG--AUCcUGGacc -5' |
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| 31659 | 5' | -56.6 | NC_006883.1 | + | 223061 | 0.81 | 0.304205 |
|
Target: 5'- aCCUGGAGGACCaacaggACCACcagaaggaccagUAGGACCaGGa -3' miRNA: 3'- -GGACCUCCUGG------UGGUG------------AUCCUGGaCC- -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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