miRNA: 3'- gaUCAG----GCCugCCUauuaaAGCUGCA- -5'
miRNA: 3'- gaUCAG----------GCCUGCCUauuaaAGCUGCA- -5'
miRNA: 3'- gaUCAG----------GCCUGCCUauuaaAGCUGCA- -5'
miRNA: 3'- gaucAGGCCUGCCUAUuaaAGCUGCA- -5'
miRNA: 3'- -GAUCAGGCCUGCCUAUUAAAGCUGCA- -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 | |||||||
| 4153 | 5' | -48.3 | NC_001664.1 | + | 8669 | 0.66 | 0.999787 |
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Target: 5'- -cAGUCugcuCGGugGGGgcgcgUCGGCGUg -3' miRNA: 3'- gaUCAG----GCCugCCUauuaaAGCUGCA- -5' |
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| 4153 | 5' | -48.3 | NC_001664.1 | + | 3598 | 0.68 | 0.998215 |
|
Target: 5'- -cGGUCgccgccucugCGGACGGAg----UCGGCGUg -3' miRNA: 3'- gaUCAG----------GCCUGCCUauuaaAGCUGCA- -5' |
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| 4153 | 5' | -48.3 | NC_001664.1 | + | 154679 | 0.68 | 0.998215 |
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Target: 5'- -cGGUCgccgccucugCGGACGGAg----UCGGCGUg -3' miRNA: 3'- gaUCAG----------GCCUGCCUauuaaAGCUGCA- -5' |
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| 4153 | 5' | -48.3 | NC_001664.1 | + | 16230 | 0.72 | 0.974027 |
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Target: 5'- ---cUUCGGACGGAUG---UCGACGUu -3' miRNA: 3'- gaucAGGCCUGCCUAUuaaAGCUGCA- -5' |
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| 4153 | 5' | -48.3 | NC_001664.1 | + | 90945 | 1.08 | 0.02087 |
|
Target: 5'- aCUAGUCCGGACGGAUAAUUUCGACGUc -3' miRNA: 3'- -GAUCAGGCCUGCCUAUUAAAGCUGCA- -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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