miRNA: 3'- -AGUUCCU------AGAGUCGG---AGAU--ACUGCug -5'
miRNA: 3'- -AGUUCCUAGAGU--CGGAGauacug-CUG- -5'
miRNA: 3'- aguuCCUAGAGUCGGAGauaCUGCUG- -5'
miRNA: 3'- -AGUUCCUaGAGUCGGAGa------------UACUGCUG- -5'
miRNA: 3'- -AGUUCCUAGAGUCGGAGAUACUGCUG- -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 | |||||||
| 17617 | 3' | -50.5 | NC_004466.2 | + | 7393 | 0.66 | 0.882319 |
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Target: 5'- uUCAGGGAucagcuUCUUAGCCaacUCUGucUGACGu- -3' miRNA: 3'- -AGUUCCU------AGAGUCGG---AGAU--ACUGCug -5' |
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| 17617 | 3' | -50.5 | NC_004466.2 | + | 9255 | 0.66 | 0.880722 |
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Target: 5'- cUCAGGGAUCUCGauGCCUCcaccaaaGGCc -3' miRNA: 3'- -AGUUCCUAGAGU--CGGAGauacug-CUG- -5' |
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| 17617 | 3' | -50.5 | NC_004466.2 | + | 44668 | 0.71 | 0.609772 |
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Target: 5'- ---uGGAUCUUGGCCUUgaaGGCGGCg -3' miRNA: 3'- aguuCCUAGAGUCGGAGauaCUGCUG- -5' |
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| 17617 | 3' | -50.5 | NC_004466.2 | + | 37843 | 0.75 | 0.409131 |
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Target: 5'- aUCGAGGAaCUCGGCCUUgagggguacgaggAUGAUGAUa -3' miRNA: 3'- -AGUUCCUaGAGUCGGAGa------------UACUGCUG- -5' |
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| 17617 | 3' | -50.5 | NC_004466.2 | + | 28124 | 1.11 | 0.001748 |
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Target: 5'- cUCAAGGAUCUCAGCCUCUAUGACGACu -3' miRNA: 3'- -AGUUCCUAGAGUCGGAGAUACUGCUG- -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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