miRNA: 3'- cGGGGCCCAGGGuuu----ACU--GACUACCa -5'
miRNA: 3'- cGGGGCCC--AGGGUUUACuGaCUACCa -5'
miRNA: 3'- -CGGGGCCCaGGGUUua--CUGaCUa--CCa -5'
Results 41 - 43 of 43 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 | |||||||
| 4034 | 5' | -55.6 | NC_001650.1 | + | 106230 | 0.68 | 0.887094 |
|
Target: 5'- cCCUCGGGUCCCccgcaccUGAgcUUGGUGGg -3' miRNA: 3'- cGGGGCCCAGGGuuu----ACU--GACUACCa -5' |
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| 4034 | 5' | -55.6 | NC_001650.1 | + | 7136 | 0.67 | 0.89376 |
|
Target: 5'- cUCCCGGGggUCUCAAAUG-CgGGUGGg -3' miRNA: 3'- cGGGGCCC--AGGGUUUACuGaCUACCa -5' |
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| 4034 | 5' | -55.6 | NC_001650.1 | + | 11458 | 0.73 | 0.605226 |
|
Target: 5'- aGCCCCGGG-CCCAAugggGACcGAgggGGa -3' miRNA: 3'- -CGGGGCCCaGGGUUua--CUGaCUa--CCa -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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