miRNA: 3'- -CUUCAa--CCag--------GGUGGUCCGUugCACC- -5'
miRNA: 3'- -CUUCAaCCA-GGgUGGU-CCGUUGCAcc -5'
miRNA: 3'- cuuCaaCCAgGGUGGUCCgUUGCACc -5'
miRNA: 3'- cUUCAACCAGGGU--GGUCCguuGCaCC- -5'
miRNA: 3'- -CUUCAACCAGGGUGGUCCGUUGCACC- -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 | |||||||
| 20785 | 3' | -53.8 | NC_004689.1 | + | 2109 | 0.66 | 0.862883 |
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Target: 5'- uGAAGUgagGGggaaacgcaaCCACCGGGCG--GUGGa -3' miRNA: 3'- -CUUCAa--CCag--------GGUGGUCCGUugCACC- -5' |
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| 20785 | 3' | -53.8 | NC_004689.1 | + | 19620 | 0.66 | 0.837592 |
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Target: 5'- gGAAGUcGGUgCCgACCAcGGCAAUGUc- -3' miRNA: 3'- -CUUCAaCCA-GGgUGGU-CCGUUGCAcc -5' |
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| 20785 | 3' | -53.8 | NC_004689.1 | + | 21657 | 0.66 | 0.828726 |
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Target: 5'- --cGgaGGU-CCACCGGGgAGCGUGa -3' miRNA: 3'- cuuCaaCCAgGGUGGUCCgUUGCACc -5' |
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| 20785 | 3' | -53.8 | NC_004689.1 | + | 30673 | 0.68 | 0.771597 |
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Target: 5'- uGAGUUGGUCCCGguUCAGGauuCG-GGu -3' miRNA: 3'- cUUCAACCAGGGU--GGUCCguuGCaCC- -5' |
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| 20785 | 3' | -53.8 | NC_004689.1 | + | 23252 | 1.1 | 0.001802 |
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Target: 5'- uGAAGUUGGUCCCACCAGGCAACGUGGc -3' miRNA: 3'- -CUUCAACCAGGGUGGUCCGUUGCACC- -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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