miRNA: 3'- -GCGCACGCAGUUAGCUGCUGGGGCCU- -5'
miRNA: 3'- -GCGcacGCAGuUAGCUGCUGGGGCCU- -5'
miRNA: 3'- gCGCA--CGCAGUUA-----------GCUGCUG--GGGCCU- -5'
miRNA: 3'- -GCGCACGCAGUUAGCUGCUGGGGCCU- -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 | |||||||
| 32588 | 3' | -57 | NC_007151.1 | + | 47687 | 1.09 | 0.002745 |
|
Target: 5'- aCGCGUGCGUCAAUCGACGACCCCGGAu -3' miRNA: 3'- -GCGCACGCAGUUAGCUGCUGGGGCCU- -5' |
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| 32588 | 3' | -57 | NC_007151.1 | + | 78256 | 0.66 | 0.891872 |
|
Target: 5'- aCGUuauCGUC-AUCGACGACUCUGGGc -3' miRNA: 3'- -GCGcacGCAGuUAGCUGCUGGGGCCU- -5' |
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| 32588 | 3' | -57 | NC_007151.1 | + | 22243 | 0.7 | 0.685714 |
|
Target: 5'- aGCGUcaGCGUCAAUggcgucgacacCGACGACgaCUCGGAg -3' miRNA: 3'- gCGCA--CGCAGUUA-----------GCUGCUG--GGGCCU- -5' |
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| 32588 | 3' | -57 | NC_007151.1 | + | 140732 | 1.09 | 0.002745 |
|
Target: 5'- aCGCGUGCGUCAAUCGACGACCCCGGAu -3' miRNA: 3'- -GCGCACGCAGUUAGCUGCUGGGGCCU- -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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