miRNA: 3'- uaauGGUUGa----UGAGCGUC---UCGgCGCU- -5'
miRNA: 3'- uaaUGGUUG-----------AUGAGCGUCUCGG----------CGCU- -5'
miRNA: 3'- uaaUGGu--UgAUGAGCGUCUc-GGCGCU- -5'
Results 101 - 103 of 103 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 23817 | 3' | -52.8 | NC_005261.1 | + | 135078 | 0.66 | 0.959911 |
|
Target: 5'- ---uCCGGCggcggGCUCGCGGcccGGCgGCGGa -3' miRNA: 3'- uaauGGUUGa----UGAGCGUC---UCGgCGCU- -5' |
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| 23817 | 3' | -52.8 | NC_005261.1 | + | 137805 | 0.67 | 0.927653 |
|
Target: 5'- --cGCCGGCgccgccccuggUGCUCGCGGGGCUggcagggcugGCGGa -3' miRNA: 3'- uaaUGGUUG-----------AUGAGCGUCUCGG----------CGCU- -5' |
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| 23817 | 3' | -52.8 | NC_005261.1 | + | 137901 | 0.66 | 0.959911 |
|
Target: 5'- --cGCCccuGgUGCUCGCGGGccCCGCGAg -3' miRNA: 3'- uaaUGGu--UgAUGAGCGUCUc-GGCGCU- -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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