miRNA: 3'- -GAGUCUGGCAGCGCUUGCUCGACGUG- -5'
miRNA: 3'- gAGUCugGCA-GCGCUUGC-UCGacgUG- -5'
miRNA: 3'- -GAGU-CUG-GCAGC---------GCUUGCUCGa-CGUG- -5'
miRNA: 3'- gAGUC--UG-GCAGCGc--UUGCUCGaCGUG- -5'
Results 41 - 44 of 44 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 | |||||||
| 17002 | 3' | -55.5 | NC_004333.2 | + | 44509 | 1.1 | 0.000654 |
|
Target: 5'- gCUCAGACCGUCGCGAACGAGCUGCACa -3' miRNA: 3'- -GAGUCUGGCAGCGCUUGCUCGACGUG- -5' |
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| 17002 | 3' | -55.5 | NC_004333.2 | + | 45947 | 0.67 | 0.624457 |
|
Target: 5'- aUCGGugCGUaCGCGAACGcGGCga-ACa -3' miRNA: 3'- gAGUCugGCA-GCGCUUGC-UCGacgUG- -5' |
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| 17002 | 3' | -55.5 | NC_004333.2 | + | 46313 | 0.69 | 0.504644 |
|
Target: 5'- aCUCGcGACuCGUCGaagaucgacUGAACGAGCggGCGCc -3' miRNA: 3'- -GAGU-CUG-GCAGC---------GCUUGCUCGa-CGUG- -5' |
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| 17002 | 3' | -55.5 | NC_004333.2 | + | 47606 | 0.67 | 0.624457 |
|
Target: 5'- uUCAGcuGCgCGUCGCcgaGAUGGGCgGCACg -3' miRNA: 3'- gAGUC--UG-GCAGCGc--UUGCUCGaCGUG- -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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