miRNA: 3'- -CGUGGGGUUAAGCAGUAUCCGACGGU- -5'
miRNA: 3'- cGUGGGGUUaaGCAGUAU-----------CCGACgGU- -5'
miRNA: 3'- -CG-UGGGGUUaag---C-AGUAUCCG---ACGGU- -5'
miRNA: 3'- -CGUGGGGuuaaGCAGUa---UCCGaCGGU- -5'
miRNA: 3'- -CGUGGGGUUaa--GCAGUa--UCCGa---CGgu -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 |
| Predicted miRNA align pattern | |||||||
| 28758 | 5' | -53 | NC_006146.1 | + | 140552 | 1.1 | 0.004613 |
|
Target: 5'- gGCACCCCAAUUCGUCAUAGGCUGCCAc -3' miRNA: 3'- -CGUGGGGUUAAGCAGUAUCCGACGGU- -5' |
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| 28758 | 5' | -53 | NC_006146.1 | + | 154195 | 0.7 | 0.865524 |
|
Target: 5'- cCACCCCGGggCGUCGUGgaccugcgucuGGCUGgCGu -3' miRNA: 3'- cGUGGGGUUaaGCAGUAU-----------CCGACgGU- -5' |
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| 28758 | 5' | -53 | NC_006146.1 | + | 161394 | 0.66 | 0.973775 |
|
Target: 5'- uGCaACCCUAAgcugcaGaUCAUAGGCcugUGCCAg -3' miRNA: 3'- -CG-UGGGGUUaag---C-AGUAUCCG---ACGGU- -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 | + | 170687 | 0.66 | 0.981024 |
|
Target: 5'- gGCGCCCCGGggacCGUCGcggGGGCaccgGCg- -3' miRNA: 3'- -CGUGGGGUUaa--GCAGUa--UCCGa---CGgu -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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