miRNA: 3'- -UUAGUGGCCAGCGGCUACGCUGACUU- -5'
miRNA: 3'- uuaGUGGcCAGCGGCuaCGCUGACUU- -5'
miRNA: 3'- -UUAGUGGCCAG---CGgcuACGCUGaCUu -5'
miRNA: 3'- -UUAGuGGCCAGCGGCUa-CGCUGaCUU- -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 |
| Predicted miRNA align pattern | |||||||
| 21768 | 5' | -56 | NC_004813.1 | + | 23557 | 1.03 | 0.001845 |
|
Target: 5'- gAAUCACCGGUCGCCGAUGCGACUGAAc -3' miRNA: 3'- -UUAGUGGCCAGCGGCUACGCUGACUU- -5' |
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| 21768 | 5' | -56 | NC_004813.1 | + | 14480 | 0.68 | 0.494603 |
|
Target: 5'- --cCAUCaGUUGCUGcgGCGGCUGAAa -3' miRNA: 3'- uuaGUGGcCAGCGGCuaCGCUGACUU- -5' |
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| 21768 | 5' | -56 | NC_004813.1 | + | 22861 | 0.66 | 0.657979 |
|
Target: 5'- cAGUCACCGGUCaguGCauuUGCGGCgGAu -3' miRNA: 3'- -UUAGUGGCCAG---CGgcuACGCUGaCUu -5' |
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| 21768 | 5' | -56 | NC_004813.1 | + | 30425 | 0.66 | 0.613621 |
|
Target: 5'- cGGUUuCCGGUUGCCGGacGCGGCaGAAa -3' miRNA: 3'- -UUAGuGGCCAGCGGCUa-CGCUGaCUU- -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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