miRNA: 3'- aCUCGGUGG------UCCUGaa--UUUaaaCGAC- -5'
miRNA: 3'- aCUCGG---UGGUCCUGaauuUAAACGac -5'
miRNA: 3'- aCuCGGUGGUCC-UGa----AUUUAaACGac -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
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| Predicted miRNA align pattern | |||||||
| 13347 | 5' | -47.8 | NC_003409.1 | + | 66658 | 0.66 | 0.998243 |
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Target: 5'- aGAGCCGCUggguggGGGAUggugGGAg--GCUGg -3' miRNA: 3'- aCUCGGUGG------UCCUGaa--UUUaaaCGAC- -5' |
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| 13347 | 5' | -47.8 | NC_003409.1 | + | 98163 | 0.66 | 0.998816 |
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Target: 5'- aGGGCUcguGCCAGGGCgcc-GUUUGUa- -3' miRNA: 3'- aCUCGG---UGGUCCUGaauuUAAACGac -5' |
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| 13347 | 5' | -47.8 | NC_003409.1 | + | 134191 | 0.66 | 0.999037 |
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Target: 5'- gGuGCCACCGGGuACgagagUGAGUgUGCc- -3' miRNA: 3'- aCuCGGUGGUCC-UGa----AUUUAaACGac -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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