miRNA: 3'- -CGUG-GGGUuAAG-CAgua-UCCGACGGU- -5'
miRNA: 3'- -CGUGGGGuuaaGCAGUa---UCCGaCGGU- -5'
miRNA: 3'- cGUGGGGuuaAGCAGUA--UCCG------ACGGU- -5'
miRNA: 3'- -CGUGGGGUUaagcAGUAUCCGACGGu -5'
miRNA: 3'- -CGUGGGGUUAAGCAGUAUCCGACGGU- -5'
Results 21 - 25 of 25 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 | |||||||
| 28758 | 5' | -53 | NC_006146.1 | + | 109108 | 0.71 | 0.824648 |
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Target: 5'- gGCGCgCCCAcUUCuGUaacgAGGCUGCCGu -3' miRNA: 3'- -CGUG-GGGUuAAG-CAgua-UCCGACGGU- -5' |
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| 28758 | 5' | -53 | NC_006146.1 | + | 165918 | 0.71 | 0.815895 |
|
Target: 5'- gGCACCCCg---CGUUAgugaAGGCcGCCAg -3' miRNA: 3'- -CGUGGGGuuaaGCAGUa---UCCGaCGGU- -5' |
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| 28758 | 5' | -53 | NC_006146.1 | + | 102520 | 0.73 | 0.740385 |
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Target: 5'- cCACCCCcg-UCGUCAUcaAGGCccugguUGCCAc -3' miRNA: 3'- cGUGGGGuuaAGCAGUA--UCCG------ACGGU- -5' |
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| 28758 | 5' | -53 | NC_006146.1 | + | 102924 | 0.83 | 0.240605 |
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Target: 5'- uGCGCCCCAAga--UCGUGGGCUGCCu -3' miRNA: 3'- -CGUGGGGUUaagcAGUAUCCGACGGu -5' |
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| 28758 | 5' | -53 | NC_006146.1 | + | 140552 | 1.1 | 0.004613 |
|
Target: 5'- gGCACCCCAAUUCGUCAUAGGCUGCCAc -3' miRNA: 3'- -CGUGGGGUUAAGCAGUAUCCGACGGU- -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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