miRNA: 3'- -CGGgu-GUGGuGAAUACGU-CCaGCCAG- -5'
miRNA: 3'- -CGGGUG-UGGu-GAAUaCGUC-CaGCCAG- -5'
miRNA: 3'- -CGGGU-GUGGUGa-----AUa----CGUCCA-GCCag -5'
miRNA: 3'- -CgGGUGUGGUGaauaCGUC---CAGCCAG- -5'
Results 21 - 24 of 24 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 | |||||||
| 18288 | 3' | -54.3 | NC_004681.1 | + | 60860 | 0.68 | 0.733438 |
|
Target: 5'- aGCCacuCGCC-CUUAUGCGuGGcUGGUCa -3' miRNA: 3'- -CGGgu-GUGGuGAAUACGU-CCaGCCAG- -5' |
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| 18288 | 3' | -54.3 | NC_004681.1 | + | 37393 | 0.67 | 0.803396 |
|
Target: 5'- uGCCCGCgGCCuuCUUG-GCGGcGaCGGUCa -3' miRNA: 3'- -CGGGUG-UGGu-GAAUaCGUC-CaGCCAG- -5' |
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| 18288 | 3' | -54.3 | NC_004681.1 | + | 13130 | 0.66 | 0.83096 |
|
Target: 5'- uGCCCGcCACCGCccuucgUGgcacgGCGGGUaCGGg- -3' miRNA: 3'- -CGGGU-GUGGUGa-----AUa----CGUCCA-GCCag -5' |
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| 18288 | 3' | -54.3 | NC_004681.1 | + | 29451 | 0.72 | 0.518771 |
|
Target: 5'- cGgCUACACCACgg--GCGGugaGUCGGUCa -3' miRNA: 3'- -CgGGUGUGGUGaauaCGUC---CAGCCAG- -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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