miRNA: 3'- aaGCC--------------GGCGGUGUGUa--ACCGUCGgUC- -5'
miRNA: 3'- aAGCCGGCGG--------UGUGuaaCCGUCGGUC- -5'
miRNA: 3'- -AAGCCGGCGGUGUGUAACCGUCGGUC- -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# | P value |
| Predicted miRNA align pattern | |||||||
| 18053 | 3' | -58.7 | NC_004680.1 | + | 50001 | 0.67 | 0.451968 |
|
Target: 5'- -gCGGaaaucacauucaccCCGCCGCGCAcccUGGCAGUgGGa -3' miRNA: 3'- aaGCC--------------GGCGGUGUGUa--ACCGUCGgUC- -5' |
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| 18053 | 3' | -58.7 | NC_004680.1 | + | 39396 | 0.66 | 0.464801 |
|
Target: 5'- gUUGGUCGUUgaccaucuGCACcagGGCGGCCAGu -3' miRNA: 3'- aAGCCGGCGG--------UGUGuaaCCGUCGGUC- -5' |
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| 18053 | 3' | -58.7 | NC_004680.1 | + | 2049 | 1.05 | 0.000756 |
|
Target: 5'- cUUCGGCCGCCACACAUUGGCAGCCAGc -3' miRNA: 3'- -AAGCCGGCGGUGUGUAACCGUCGGUC- -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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