miRNA: 3'- -GACUUGU--UC-CAGUcGUUGGCG-----UAAGU- -5'
miRNA: 3'- -GACUUGUUc--CAGuCGuUGGCGUAAGU- -5'
miRNA: 3'- gACUUGUUCCAGU-CGU----UGGCgUaaGU- -5'
miRNA: 3'- -GACuUGUUCCAGUCGuUGGCGUaagu -5'
miRNA: 3'- -GACUUGUUCCAGUCGUUGGCGUAAGU- -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 | |||||||
| 20998 | 3' | -49.1 | NC_004735.1 | + | 58861 | 0.66 | 0.995577 |
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Target: 5'- aCUGAACGguAGuGUCGaCAACCGCcugauAUUCAu -3' miRNA: 3'- -GACUUGU--UC-CAGUcGUUGGCG-----UAAGU- -5' |
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| 20998 | 3' | -49.1 | NC_004735.1 | + | 57907 | 0.67 | 0.99297 |
|
Target: 5'- aCUGAACGGcuuGUC-GUcGCCGCGUUCGa -3' miRNA: 3'- -GACUUGUUc--CAGuCGuUGGCGUAAGU- -5' |
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| 20998 | 3' | -49.1 | NC_004735.1 | + | 112263 | 0.67 | 0.98926 |
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Target: 5'- gUGAGCAAGGUCAaGCGugaaGCCGgGcaCAu -3' miRNA: 3'- gACUUGUUCCAGU-CGU----UGGCgUaaGU- -5' |
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| 20998 | 3' | -49.1 | NC_004735.1 | + | 49618 | 0.7 | 0.944981 |
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Target: 5'- aCUG-GCAAGGUUAGCcGCUGCAa--- -3' miRNA: 3'- -GACuUGUUCCAGUCGuUGGCGUaagu -5' |
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| 20998 | 3' | -49.1 | NC_004735.1 | + | 125986 | 1.1 | 0.008167 |
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Target: 5'- aCUGAACAAGGUCAGCAACCGCAUUCAg -3' miRNA: 3'- -GACUUGUUCCAGUCGUUGGCGUAAGU- -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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