miRNA: 3'- -GGGAAGCau-CAACGa---GAGUCC-CugGG- -5'
miRNA: 3'- -GGGaaGCA---UCAACGaGaGUCCCugGG- -5'
miRNA: 3'- gGGAAGCA-UCA-----ACGAGAG------UCCCUgGG- -5'
miRNA: 3'- gGGAAGCAU--CAaCG---AGAGUCCCUGgg -5'
miRNA: 3'- -GGGAAGCAUCAACGAGAGUCCCUGGG- -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
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| Predicted miRNA align pattern | |||||||
| 8119 | 5' | -53.3 | NC_001978.2 | + | 31547 | 0.66 | 0.768947 |
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Target: 5'- cCCCUUCGgucGUUGUguugUUCGGGaGugCUc -3' miRNA: 3'- -GGGAAGCau-CAACGa---GAGUCC-CugGG- -5' |
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| 8119 | 5' | -53.3 | NC_001978.2 | + | 28216 | 0.66 | 0.747918 |
|
Target: 5'- gCCCggCGUaaaGGUUGUaCgUAGGGugCCg -3' miRNA: 3'- -GGGaaGCA---UCAACGaGaGUCCCugGG- -5' |
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| 8119 | 5' | -53.3 | NC_001978.2 | + | 17214 | 0.68 | 0.637331 |
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Target: 5'- aCCUUCGUgAGUugggcUGCUCUUcaggcuGGGGAgUCg -3' miRNA: 3'- gGGAAGCA-UCA-----ACGAGAG------UCCCUgGG- -5' |
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| 8119 | 5' | -53.3 | NC_001978.2 | + | 5275 | 0.7 | 0.515195 |
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Target: 5'- gCCUUCGUGccGUcGCgcuUCUCAGGGGCg- -3' miRNA: 3'- gGGAAGCAU--CAaCG---AGAGUCCCUGgg -5' |
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| 8119 | 5' | -53.3 | NC_001978.2 | + | 25115 | 1.15 | 0.000477 |
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Target: 5'- cCCCUUCGUAGUUGCUCUCAGGGACCCg -3' miRNA: 3'- -GGGAAGCAUCAACGAGAGUCCCUGGG- -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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