miRNA: 3'- -UGUACGAAGUGUAGAGCGCUGAGCCG- -5'
miRNA: 3'- -UGUACGaagugUAGAgCGCU-GAGCCG- -5'
miRNA: 3'- -UGU--ACGa-AGUGUa-------------GAGCGCUGa---GCCG- -5'
miRNA: 3'- -UGU--ACGa-AGUGUa-------------GAGCGCUGa---GCCG- -5'
Results 1 - 4 of 4 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 | |||||||
| 4151 | 3' | -52.2 | NC_001664.1 | + | 77852 | 1.11 | 0.005011 |
|
Target: 5'- gACAUGCUUCACAUCUCGCGACUCGGCc -3' miRNA: 3'- -UGUACGAAGUGUAGAGCGCUGAGCCG- -5' |
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| 4151 | 3' | -52.2 | NC_001664.1 | + | 58007 | 0.7 | 0.911172 |
|
Target: 5'- gACGUGUgcca-AUCUgGCGAcCUCGGCa -3' miRNA: 3'- -UGUACGaagugUAGAgCGCU-GAGCCG- -5' |
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| 4151 | 3' | -52.2 | NC_001664.1 | + | 3996 | 0.68 | 0.957741 |
|
Target: 5'- cACAguUGCcgUCACAcccccugucccuagCUCGCGACgggcCGGCg -3' miRNA: 3'- -UGU--ACGa-AGUGUa-------------GAGCGCUGa---GCCG- -5' |
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| 4151 | 3' | -52.2 | NC_001664.1 | + | 155078 | 0.68 | 0.957741 |
|
Target: 5'- cACAguUGCcgUCACAcccccugucccuagCUCGCGACgggcCGGCg -3' miRNA: 3'- -UGU--ACGa-AGUGUa-------------GAGCGCUGa---GCCG- -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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