miRNA: 3'- -UUCACGa-UCG-GCGuGUGCugCGACAU- -5'
miRNA: 3'- -UUCA-CGAUCGGCGUGugC---UGCGACau -5'
miRNA: 3'- -UUCaCGa---UCGGCguGUGCUGCGACAU- -5'
miRNA: 3'- -UUCACGAUCGGCGUGUGCUGCGACAU- -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 | |||||||
| 6210 | 5' | -56.1 | NC_001844.1 | + | 1226 | 0.68 | 0.726563 |
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Target: 5'- gAGGUGCacAGCaUGC-CGCGugGCUGUGu -3' miRNA: 3'- -UUCACGa-UCG-GCGuGUGCugCGACAU- -5' |
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| 6210 | 5' | -56.1 | NC_001844.1 | + | 12694 | 0.7 | 0.654045 |
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Target: 5'- cGAGUaGCUGGUCGCGCugGuacACGUUGg- -3' miRNA: 3'- -UUCA-CGAUCGGCGUGugC---UGCGACau -5' |
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| 6210 | 5' | -56.1 | NC_001844.1 | + | 63581 | 0.7 | 0.643536 |
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Target: 5'- gGAGgGCgugaAGCUGguUACGGCGCUGUAu -3' miRNA: 3'- -UUCaCGa---UCGGCguGUGCUGCGACAU- -5' |
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| 6210 | 5' | -56.1 | NC_001844.1 | + | 67154 | 1.05 | 0.003788 |
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Target: 5'- gAAGUGCUAGCCGCACACGACGCUGUAg -3' miRNA: 3'- -UUCACGAUCGGCGUGUGCUGCGACAU- -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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