miRNA: 3'- -CGUCgGCGCUAUGGaa-UUGGUC-UGUu -5'
miRNA: 3'- -CGUCG-GCGCUAUGGaauUGgu-CUGUU- -5'
miRNA: 3'- -CGuCGGCGCUa--UGGa-------AUUGGUCUGUU- -5'
miRNA: 3'- -CGU---CGGCGCUaUGGAaUUGGuCUGUU- -5'
miRNA: 3'- -CGUCGGCGCUAUGGAAUUGGUCUGUU- -5'
Results 21 - 25 of 25 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 | |||||||
| 17016 | 5' | -51.4 | NC_004333.2 | + | 25942 | 0.71 | 0.533744 |
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Target: 5'- cGCGG-CGCGAUGCCggcGGCCAGuACGc -3' miRNA: 3'- -CGUCgGCGCUAUGGaa-UUGGUC-UGUu -5' |
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| 17016 | 5' | -51.4 | NC_004333.2 | + | 35063 | 0.73 | 0.468294 |
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Target: 5'- cGCAGCuCGCGAUGCCgu-ACaucGACAAc -3' miRNA: 3'- -CGUCG-GCGCUAUGGaauUGgu-CUGUU- -5' |
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| 17016 | 5' | -51.4 | NC_004333.2 | + | 32463 | 0.73 | 0.437142 |
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Target: 5'- aGC-GCCGCGAcgaGCCgcagcaugUAACCGGACAAc -3' miRNA: 3'- -CGuCGGCGCUa--UGGa-------AUUGGUCUGUU- -5' |
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| 17016 | 5' | -51.4 | NC_004333.2 | + | 25776 | 0.75 | 0.33401 |
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Target: 5'- cGCAugcGCCGCGAaGCCUcGACCuGGCAGa -3' miRNA: 3'- -CGU---CGGCGCUaUGGAaUUGGuCUGUU- -5' |
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| 17016 | 5' | -51.4 | NC_004333.2 | + | 39322 | 1.09 | 0.001695 |
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Target: 5'- cGCAGCCGCGAUACCUUAACCAGACAAg -3' miRNA: 3'- -CGUCGGCGCUAUGGAAUUGGUCUGUU- -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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