miRNA: 3'- -UCCa--GCCGUUCCaCC----GGUUUGCUGAc -5'
miRNA: 3'- uccAGCCGUuCCACCG---GUUUgCUGAC- -5'
miRNA: 3'- -UC-CAGCCGUu-CCACCGGuuUGCUGac -5'
miRNA: 3'- -UCCAGC-CG--------------UUCCACCG-GuuUGCUGac -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
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| Predicted miRNA align pattern | |||||||
| 10571 | 3' | -55.4 | NC_002687.1 | + | 258739 | 0.66 | 0.982168 |
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Target: 5'- aAGGgagCGGUAAGG-GGauuaCCAAGCGAUUu -3' miRNA: 3'- -UCCa--GCCGUUCCaCC----GGUUUGCUGAc -5' |
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| 10571 | 3' | -55.4 | NC_002687.1 | + | 198326 | 0.66 | 0.985699 |
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Target: 5'- --cUCGGCAuGGUGGCacaCGAAaGACUGa -3' miRNA: 3'- uccAGCCGUuCCACCG---GUUUgCUGAC- -5' |
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| 10571 | 3' | -55.4 | NC_002687.1 | + | 331675 | 0.66 | 0.985699 |
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Target: 5'- cAGuGUCGGUGucGGUGGCUccACGACc- -3' miRNA: 3'- -UC-CAGCCGUu-CCACCGGuuUGCUGac -5' |
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| 10571 | 3' | -55.4 | NC_002687.1 | + | 226198 | 0.66 | 0.986799 |
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Target: 5'- aAGGUCGuGCucaagccggacaggGGGGUGGCgUggGCGGCc- -3' miRNA: 3'- -UCCAGC-CG--------------UUCCACCG-GuuUGCUGac -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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