miRNA: 3'- cgUCAAAUAUCGuCAccCGUUGUGCa -5'
miRNA: 3'- -CGUcAAAUaUCGUC-ACCCGUUgUGCa -5'
miRNA: 3'- -CGUCaAAUAUCGUCACCCGUUGUGCA- -5'
miRNA: 3'- cGUCAAAUAUCGUC-AC--CCGU-UGUGCa -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 | |||||||
| 2114 | 5' | -48.5 | NC_001350.1 | + | 5046 | 0.68 | 0.979768 |
|
Target: 5'- -aAGUUUAUAGCuGUa-GCAACACGg -3' miRNA: 3'- cgUCAAAUAUCGuCAccCGUUGUGCa -5' |
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| 2114 | 5' | -48.5 | NC_001350.1 | + | 31862 | 0.66 | 0.994887 |
|
Target: 5'- cGCAuUUUG-AGCAGuUGGGCAAaGCGa -3' miRNA: 3'- -CGUcAAAUaUCGUC-ACCCGUUgUGCa -5' |
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| 2114 | 5' | -48.5 | NC_001350.1 | + | 5151 | 1 | 0.036554 |
|
Target: 5'- uGCAG-UUAUAGCAGUGGGCAACACGUc -3' miRNA: 3'- -CGUCaAAUAUCGUCACCCGUUGUGCA- -5' |
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| 2114 | 5' | -48.5 | NC_001350.1 | + | 111525 | 0.67 | 0.993033 |
|
Target: 5'- aCAGUUUGUAGCAGcUGuaGGCGcAUAUGa -3' miRNA: 3'- cGUCAAAUAUCGUC-AC--CCGU-UGUGCa -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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