miRNA: 3'- -AGCGuGGUGUCGuuuuAGaCAGGCGu -5'
miRNA: 3'- aGCGUGGU-GUCGUUU--------------UAGa-CAGGCgu -5'
miRNA: 3'- aGCGUGGUGUCGUUUUagacaGGCGU- -5'
Results 21 - 23 of 23 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 | |||||||
| 22967 | 3' | -51.6 | NC_005137.2 | + | 115444 | 0.68 | 0.950398 |
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Target: 5'- aUCGC-CCGCAGC----UC-GUCCGCu -3' miRNA: 3'- -AGCGuGGUGUCGuuuuAGaCAGGCGu -5' |
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| 22967 | 3' | -51.6 | NC_005137.2 | + | 90853 | 0.67 | 0.953383 |
|
Target: 5'- aCGCACCAcCAGCGGAuaauaaaagucggcGUCgcGUCCGg- -3' miRNA: 3'- aGCGUGGU-GUCGUUU--------------UAGa-CAGGCgu -5' |
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| 22967 | 3' | -51.6 | NC_005137.2 | + | 122578 | 0.67 | 0.958601 |
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Target: 5'- gCGCGCUGCAGCAAAAc----CCGCGu -3' miRNA: 3'- aGCGUGGUGUCGUUUUagacaGGCGU- -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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