miRNA: 3'- -GGUAgC-GCUCCAGCG-CUCUgAGCGCc -5'
miRNA: 3'- -GGUAGCGCUCCAGCgcucUGAGCGcc -5'
miRNA: 3'- gGUAGCGCU----CCAGCGcucUGAGCGCc -5'
Results 21 - 23 of 23 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 | |||||||
| 23201 | 5' | -56.8 | NC_005259.1 | + | 57965 | 0.7 | 0.523652 |
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Target: 5'- cCCAUgGuCGAGGUCGCcGGGA-UCGUGa -3' miRNA: 3'- -GGUAgC-GCUCCAGCG-CUCUgAGCGCc -5' |
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| 23201 | 5' | -56.8 | NC_005259.1 | + | 58686 | 0.7 | 0.543904 |
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Target: 5'- uCCAUCGCGGGGUCG----GCUCGUc- -3' miRNA: 3'- -GGUAGCGCUCCAGCgcucUGAGCGcc -5' |
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| 23201 | 5' | -56.8 | NC_005259.1 | + | 14843 | 0.66 | 0.779295 |
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Target: 5'- gCAUCGUGGacacGGUCGU---GCUCGCGa -3' miRNA: 3'- gGUAGCGCU----CCAGCGcucUGAGCGCc -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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