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miRNA: 3'- -CGUCGGGaGuu--GCCGGG--------UGGCC-UCUu -5'
miRNA: 3'- -CGUCGG---GA-GUUGCCGG-GUGGCCUCUU- -5'
miRNA: 3'- -CGUCGGGAGUUGCCGGGUGGCCUCUU- -5'
Results 1 - 3 of 3 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 | |||||||
| 16719 | 3' | -60.2 | NC_004167.1 | + | 38870 | 0.66 | 0.360921 |
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Target: 5'- gGCAGCCC-CuaugUGGCCCgugccacgGCCGGaAGAc -3' miRNA: 3'- -CGUCGGGaGuu--GCCGGG--------UGGCC-UCUu -5' |
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| 16719 | 3' | -60.2 | NC_004167.1 | + | 36851 | 0.71 | 0.149115 |
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Target: 5'- aGCAGCUgguCUgCGGCGGCCgUAUCGGGGAAa -3' miRNA: 3'- -CGUCGG---GA-GUUGCCGG-GUGGCCUCUU- -5' |
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| 16719 | 3' | -60.2 | NC_004167.1 | + | 33466 | 1.07 | 0.000241 |
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Target: 5'- aGCAGCCCUCAACGGCCCACCGGAGAAu -3' miRNA: 3'- -CGUCGGGAGUUGCCGGGUGGCCUCUU- -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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