miRNA: 3'- gGCA--UCGAGGCAaGAAG---CUg---GCGACU- -5'
miRNA: 3'- -GGCA--UCGAGgCa----AGaaGCUG-GCGACU- -5'
miRNA: 3'- -GGCAUCGAGGCAAGAAGCUGGCGACU- -5'
Results 1 - 3 of 3 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 | |||||||
| 22028 | 5' | -53.2 | NC_004927.1 | + | 66524 | 0.69 | 0.766271 |
|
Target: 5'- aCGUccAGCUCCGUgCUUCucuGAacgaCGCUGAg -3' miRNA: 3'- gGCA--UCGAGGCAaGAAG---CUg---GCGACU- -5' |
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| 22028 | 5' | -53.2 | NC_004927.1 | + | 58331 | 0.68 | 0.84086 |
|
Target: 5'- cCCGUucAGCUCgGgaaggUCaaCGACgCGCUGAa -3' miRNA: 3'- -GGCA--UCGAGgCa----AGaaGCUG-GCGACU- -5' |
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| 22028 | 5' | -53.2 | NC_004927.1 | + | 7744 | 1.11 | 0.001978 |
|
Target: 5'- gCCGUAGCUCCGUUCUUCGACCGCUGAa -3' miRNA: 3'- -GGCAUCGAGGCAAGAAGCUGGCGACU- -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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