miRNA: 3'- -CGUcAGUA-AGUCUGGCCGGUaa--------CCGg -5'
miRNA: 3'- -CGUCAguaAGUCUGGc--CGGuaACCGG- -5'
miRNA: 3'- -CGUCaGUaaGUCuGGCCGGUa-----ACCGG- -5'
miRNA: 3'- -CGUCagUAaGUCUGGCCGGUaa----------CCGG- -5'
Results 1 - 4 of 4 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 | |||||||
| 7575 | 3' | -52.9 | NC_001962.1 | + | 1790 | 0.66 | 0.956993 |
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Target: 5'- cGCAcUCGUcUCAGACCGGUCAaaccaaaaacGGCg -3' miRNA: 3'- -CGUcAGUA-AGUCUGGCCGGUaa--------CCGg -5' |
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| 7575 | 3' | -52.9 | NC_001962.1 | + | 28089 | 0.68 | 0.899169 |
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Target: 5'- gGCGGUa--UCAGACCaaaGCCggUGGCUc -3' miRNA: 3'- -CGUCAguaAGUCUGGc--CGGuaACCGG- -5' |
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| 7575 | 3' | -52.9 | NC_001962.1 | + | 126718 | 0.69 | 0.87815 |
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Target: 5'- gGCGG-CGagCAG-CCGGUCAgauuugUGGCCa -3' miRNA: 3'- -CGUCaGUaaGUCuGGCCGGUa-----ACCGG- -5' |
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| 7575 | 3' | -52.9 | NC_001962.1 | + | 33618 | 0.72 | 0.751464 |
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Target: 5'- gGCAG--AUaCAGGCCGGCCAguaacgcgugagGGCCg -3' miRNA: 3'- -CGUCagUAaGUCUGGCCGGUaa----------CCGG- -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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