miRNA: 3'- -GGUAGCAGUGua---CGG-GCGa-GCGa-----GUG- -5'
miRNA: 3'- -GGUAG---CAGUGUa----------CGGGCGa---GCGAGUG- -5'
miRNA: 3'- gGUAGC----AGUG------------UACGGGCGa----GCGAGUg -5'
miRNA: 3'- gGUAGCAGUG-------------UACGGgCGAGCG-AGUG- -5'
Results 41 - 44 of 44 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 | |||||||
| 29575 | 3' | -55.4 | NC_006151.1 | + | 135404 | 0.67 | 0.885787 |
|
Target: 5'- gCCGUCGUCGCcggagGCCuCGUggCGCgccaggCACu -3' miRNA: 3'- -GGUAGCAGUGua---CGG-GCGa-GCGa-----GUG- -5' |
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| 29575 | 3' | -55.4 | NC_006151.1 | + | 136619 | 0.7 | 0.720614 |
|
Target: 5'- gCCGUCaacGUCACGgaccccgcggcGCCCGUggggCGCUCGCc -3' miRNA: 3'- -GGUAG---CAGUGUa----------CGGGCGa---GCGAGUG- -5' |
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| 29575 | 3' | -55.4 | NC_006151.1 | + | 137249 | 0.66 | 0.911662 |
|
Target: 5'- aCGUCGacuuUCGCcucgcgcgcccgGUGCCCGCgggcaCGCUCGa -3' miRNA: 3'- gGUAGC----AGUG------------UACGGGCGa----GCGAGUg -5' |
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| 29575 | 3' | -55.4 | NC_006151.1 | + | 140327 | 0.75 | 0.44066 |
|
Target: 5'- gCAUCGUCACcuacacacuggugAUGCUgGCUCGCaUCGCc -3' miRNA: 3'- gGUAGCAGUG-------------UACGGgCGAGCG-AGUG- -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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