miRNA: 3'- -UUCCAGCcGCA--AGUgCCGUCGCGUuc -5'
miRNA: 3'- uuCCA----------GCCGCAAGUGCCG----UCGCGUuc -5'
miRNA: 3'- uucCAGCCGCAAG---UGCCG--UCGCGuuc -5'
miRNA: 3'- -UUCcagCCG-CaaGUGCCGUCGCGuUC- -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 | |||||||
| 8080 | 3' | -57.2 | NC_001978.2 | + | 37816 | 0.67 | 0.412454 |
|
Target: 5'- aGGGGUCGcCGUcgUCG-GGCAGCGCGc- -3' miRNA: 3'- -UUCCAGCcGCA--AGUgCCGUCGCGUuc -5' |
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| 8080 | 3' | -57.2 | NC_001978.2 | + | 38057 | 0.67 | 0.412454 |
|
Target: 5'- -cGGUgacgcucgaaUGGCGUUCGCGGUcggcGGCGUAu- -3' miRNA: 3'- uuCCA----------GCCGCAAGUGCCG----UCGCGUuc -5' |
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| 8080 | 3' | -57.2 | NC_001978.2 | + | 38587 | 0.7 | 0.300613 |
|
Target: 5'- --cGUCGGCGUUCgggACGGCggAGCGCc-- -3' miRNA: 3'- uucCAGCCGCAAG---UGCCG--UCGCGuuc -5' |
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| 8080 | 3' | -57.2 | NC_001978.2 | + | 41038 | 0.66 | 0.49286 |
|
Target: 5'- uGAGua-GGCuGggCGCGGCAGCGCuAGa -3' miRNA: 3'- -UUCcagCCG-CaaGUGCCGUCGCGuUC- -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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