miRNA: 3'- aGCCUaCUGCUCCCuCUCac---------CGAGCC- -5'
miRNA: 3'- agccuaCUGCUCccUCUCACCGAGCC- -5'
miRNA: 3'- agCCUACUGCUCc--------CUCUCACCGaGCC- -5'
miRNA: 3'- -AGCCUACUGCUCCCUCUCACCGAGCC- -5'
Results 1 - 4 of 4 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 | |||||||
| 23318 | 3' | -56.7 | NC_005259.1 | + | 32896 | 0.68 | 0.592678 |
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Target: 5'- cCGGG-GGCGAGGGuGAGccacccggcccGCUCGGg -3' miRNA: 3'- aGCCUaCUGCUCCCuCUCac---------CGAGCC- -5' |
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| 23318 | 3' | -56.7 | NC_005259.1 | + | 20452 | 0.7 | 0.501952 |
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Target: 5'- -----cGACGAGccGGGGUGGCUCGGa -3' miRNA: 3'- agccuaCUGCUCccUCUCACCGAGCC- -5' |
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| 23318 | 3' | -56.7 | NC_005259.1 | + | 64926 | 0.75 | 0.248303 |
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Target: 5'- -aGGAUGACGAGugccagcgcGAGGGUGGC-CGGg -3' miRNA: 3'- agCCUACUGCUCc--------CUCUCACCGaGCC- -5' |
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| 23318 | 3' | -56.7 | NC_005259.1 | + | 12684 | 1.11 | 0.000778 |
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Target: 5'- gUCGGAUGACGAGGGAGAGUGGCUCGGg -3' miRNA: 3'- -AGCCUACUGCUCCCUCUCACCGAGCC- -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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