miRNA: 3'- -GGUUUGuaGGCCAgUAGACACGuuua -5'
miRNA: 3'- ggUUugUAGGCCAGUAGa------CACGUUua -5'
miRNA: 3'- -GGUUUGUAGGC-CaGUaGACACGUuua -5'
miRNA: 3'- -GGUUUGUA-------------GGCCAGUAG-ACACGuuua -5'
miRNA: 3'- -GGUUUGUAGGCCAGUAGACACGUUUA- -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 | |||||||
| 29984 | 3' | -47.3 | NC_006273.1 | + | 228657 | 0.67 | 0.999892 |
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Target: 5'- aCUGAACucCCGGUgGUCUGUGUg--- -3' miRNA: 3'- -GGUUUGuaGGCCAgUAGACACGuuua -5' |
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| 29984 | 3' | -47.3 | NC_006273.1 | + | 92915 | 0.68 | 0.999819 |
|
Target: 5'- -uGAugAUCUGGUCGUUggaacagGUGCAAu- -3' miRNA: 3'- ggUUugUAGGCCAGUAGa------CACGUUua -5' |
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| 29984 | 3' | -47.3 | NC_006273.1 | + | 144339 | 0.68 | 0.999706 |
|
Target: 5'- gUCAGGCGUCCGaGaCGaCUGUGCAc-- -3' miRNA: 3'- -GGUUUGUAGGC-CaGUaGACACGUuua -5' |
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| 29984 | 3' | -47.3 | NC_006273.1 | + | 177566 | 0.69 | 0.999103 |
|
Target: 5'- gCCGGGCGUcuucgcagcguucCCGGUCGUCgUGUGUg--- -3' miRNA: 3'- -GGUUUGUA-------------GGCCAGUAG-ACACGuuua -5' |
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| 29984 | 3' | -47.3 | NC_006273.1 | + | 2590 | 1.1 | 0.025347 |
|
Target: 5'- aCCAAACAUCCGGUCAUCUGUGCAAAUg -3' miRNA: 3'- -GGUUUGUAGGCCAGUAGACACGUUUA- -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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