miRNA: 3'- cAGC-GCUCG--------UUGCGCGAGCUGC-----AUGa -5'
miRNA: 3'- cAGcGCUCGU---UGCGCGAGCUGCAuGa -5'
miRNA: 3'- caGCGCUCGUUGCG------CGAGCuGCAuGa -5'
miRNA: 3'- cAGCgC-------UCGUUGCGCGAGCUG-------CAUGa -5'
miRNA: 3'- -CAGCGCUCGUUGCGCGAGCUGc-AUGa -5'
Results 21 - 25 of 25 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 | |||||||
| 18547 | 5' | -55.3 | NC_004682.1 | + | 37724 | 0.69 | 0.523962 |
|
Target: 5'- cUCGaCGGGCuccucguaGAUGCGCUCGACGcagccUGCg -3' miRNA: 3'- cAGC-GCUCG--------UUGCGCGAGCUGC-----AUGa -5' |
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| 18547 | 5' | -55.3 | NC_004682.1 | + | 11380 | 0.68 | 0.556157 |
|
Target: 5'- aUCcCGAGCGaagACGUGCUCGAUGU-Cg -3' miRNA: 3'- cAGcGCUCGU---UGCGCGAGCUGCAuGa -5' |
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| 18547 | 5' | -55.3 | NC_004682.1 | + | 45899 | 0.67 | 0.621971 |
|
Target: 5'- -gCGCGAGUAGCGCacucggGCUCGcCGU-Cg -3' miRNA: 3'- caGCGCUCGUUGCG------CGAGCuGCAuGa -5' |
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| 18547 | 5' | -55.3 | NC_004682.1 | + | 17522 | 0.67 | 0.641868 |
|
Target: 5'- cUCGgGccugaucGGCAACGUGCUCGGCucacuggGUACg -3' miRNA: 3'- cAGCgC-------UCGUUGCGCGAGCUG-------CAUGa -5' |
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| 18547 | 5' | -55.3 | NC_004682.1 | + | 36342 | 0.82 | 0.077168 |
|
Target: 5'- cGUCGCGGGUGACGUGCUCGACccUGCg -3' miRNA: 3'- -CAGCGCUCGUUGCGCGAGCUGc-AUGa -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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