miRNA: 3'- aGGGGa---UACaaaGg----UCUGGGGACCUu -5'
miRNA: 3'- aGGGGAUACAa--AGGUCUGGGgaccuu -5'
miRNA: 3'- aGG-GGAUACaa-------AGGUcUGGGGACCUU- -5'
miRNA: 3'- aGGGGAU------------ACAAa--GGUCUGGGGACcuu -5'
miRNA: 3'- -AGGGGAUACAAAGGUCUGGGGACCUU- -5'
Results 1 - 5 of 5 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 | |||||||
| 6125 | 5' | -55.1 | NC_001826.1 | + | 119089 | 0.67 | 0.84173 |
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Target: 5'- cCCCCgaggAUGgcgCaggggGGACCCCUGGGc -3' miRNA: 3'- aGGGGa---UACaaaGg----UCUGGGGACCUu -5' |
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| 6125 | 5' | -55.1 | NC_001826.1 | + | 98175 | 0.68 | 0.797292 |
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Target: 5'- gCCCUUAUGUacgUCCAGACCCg----- -3' miRNA: 3'- aGGGGAUACAa--AGGUCUGGGgaccuu -5' |
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| 6125 | 5' | -55.1 | NC_001826.1 | + | 47093 | 0.68 | 0.778331 |
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Target: 5'- cCCgCCUAUGgaaacaacgUCCAcGCCUCUGGAAc -3' miRNA: 3'- aGG-GGAUACaa-------AGGUcUGGGGACCUU- -5' |
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| 6125 | 5' | -55.1 | NC_001826.1 | + | 22624 | 0.71 | 0.581539 |
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Target: 5'- aCCCCUAacauccauguccUGUUaugCCAGGCCCCUGu-- -3' miRNA: 3'- aGGGGAU------------ACAAa--GGUCUGGGGACcuu -5' |
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| 6125 | 5' | -55.1 | NC_001826.1 | + | 19298 | 1.06 | 0.003431 |
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Target: 5'- uUCCCCUAUGUUUCCAGACCCCUGGAAc -3' miRNA: 3'- -AGGGGAUACAAAGGUCUGGGGACCUU- -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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