miRNA: 3'- caGCGcuCGUUgCGCGAGCUGCaUGA- -5'
miRNA: 3'- cagCGCUCGUUgCGCGAGCUGcauga -5'
miRNA: 3'- caGCGCUCGU--------UG-CGCgaGCUGCAUGa -5'
miRNA: 3'- caGCGCUCguUG-------------CGCG-AGCUGCAUga -5'
miRNA: 3'- -CAGCGCUCGUUGCGCGAGCUGCAUGA- -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 | + | 10582 | 0.67 | 0.633025 |
|
Target: 5'- -aCGCu-GCGA-GCGCUCGACGcACUg -3' miRNA: 3'- caGCGcuCGUUgCGCGAGCUGCaUGA- -5' |
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| 18547 | 5' | -55.3 | NC_004682.1 | + | 35207 | 0.67 | 0.65512 |
|
Target: 5'- --gGCGGGCGA-GCGCUCGGCu---- -3' miRNA: 3'- cagCGCUCGUUgCGCGAGCUGcauga -5' |
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| 18547 | 5' | -55.3 | NC_004682.1 | + | 27877 | 0.67 | 0.65512 |
|
Target: 5'- -aCGCGAGCGccaggggaGCaGCGa-CGACGUACa -3' miRNA: 3'- caGCGCUCGU--------UG-CGCgaGCUGCAUGa -5' |
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| 18547 | 5' | -55.3 | NC_004682.1 | + | 16195 | 0.66 | 0.708714 |
|
Target: 5'- -aCGCGAGguGCuggaucgcaaccgGCGCaUCGGCGUGg- -3' miRNA: 3'- caGCGCUCguUG-------------CGCG-AGCUGCAUga -5' |
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| 18547 | 5' | -55.3 | NC_004682.1 | + | 44959 | 1.07 | 0.001231 |
|
Target: 5'- cGUCGCGAGCAACGCGCUCGACGUACUc -3' miRNA: 3'- -CAGCGCUCGUUGCGCGAGCUGCAUGA- -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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