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miRNA: 3'- -UUCGCGUGCUu----CUGCGa--CAGCCacag -5'
miRNA: 3'- uuCGCGUG-----CUUCUgCGaCAGCCACAg -5'
miRNA: 3'- uUCG-CGUGCU------------UCUGCGa----CAGCCaCAG- -5'
Results 21 - 23 of 23 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio#
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P value |
| Predicted miRNA align pattern | |||||||
| 11042 | 5' | -55.5 | NC_002794.1 | + | 54248 | 0.66 | 0.926162 |
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Target: 5'- cGAGCGCGCGGuccacGGCGCcgcGUCGGg--- -3' miRNA: 3'- -UUCGCGUGCUu----CUGCGa--CAGCCacag -5' |
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| 11042 | 5' | -55.5 | NC_002794.1 | + | 30858 | 0.66 | 0.926162 |
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Target: 5'- -cGCGUACcagguGAAGAaGCgGUCGGUGUa -3' miRNA: 3'- uuCGCGUG-----CUUCUgCGaCAGCCACAg -5' |
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| 11042 | 5' | -55.5 | NC_002794.1 | + | 179211 | 0.66 | 0.945632 |
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Target: 5'- cGGCgGCACGAcggacguggcccAGAUGCaacagGUCGGcGUCg -3' miRNA: 3'- uUCG-CGUGCU------------UCUGCGa----CAGCCaCAG- -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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