miRNA: 3'- aCUCGAGUUU-GCGGgGaGGagCGUUU- -5'
miRNA: 3'- -ACUCgaguUUGCGGGGAGGAGCguUU- -5'
miRNA: 3'- aCUCGAGuuuGCGGgGAGG--AGCGUUU- -5'
miRNA: 3'- -ACUCGAGUUUGCGGGGAGGAGCGUUU- -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 | |||||||
| 17451 | 3' | -55.5 | NC_004453.1 | + | 13685 | 0.66 | 0.520599 |
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Target: 5'- cGAGCUCGAGcCGCCgC-CCg-GCGAAg -3' miRNA: 3'- aCUCGAGUUU-GCGGgGaGGagCGUUU- -5' |
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| 17451 | 3' | -55.5 | NC_004453.1 | + | 4597 | 0.66 | 0.498519 |
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Target: 5'- aUGAGac--GGCGCCCUUCUUCGguGAg -3' miRNA: 3'- -ACUCgaguUUGCGGGGAGGAGCguUU- -5' |
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| 17451 | 3' | -55.5 | NC_004453.1 | + | 13019 | 0.71 | 0.234676 |
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Target: 5'- cGAGCUCu--UGCCgCUCCauUCGCGAAg -3' miRNA: 3'- aCUCGAGuuuGCGGgGAGG--AGCGUUU- -5' |
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| 17451 | 3' | -55.5 | NC_004453.1 | + | 8198 | 1.06 | 0.00066 |
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Target: 5'- cUGAGCUCAAACGCCCCUCCUCGCAAAc -3' miRNA: 3'- -ACUCGAGUUUGCGGGGAGGAGCGUUU- -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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