miRNA: 3'- -CGGuaACUaGaCCGACCAgCGG-GCGA- -5'
miRNA: 3'- -CGGUaa----------CUAga---CCGACCAG--CGGGCGA- -5'
miRNA: 3'- -CGGUAaCUaGACCGaC-CAGCgGGCGA- -5'
miRNA: 3'- -CGGUAACuaGACCG--------ACCagCGGGCGa -5'
Results 21 - 24 of 24 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 | |||||||
| 18993 | 5' | -57 | NC_004684.1 | + | 58623 | 0.66 | 0.647532 |
|
Target: 5'- gGCCcgUGG-C-GGCUGGU-GCCgCGCUg -3' miRNA: 3'- -CGGuaACUaGaCCGACCAgCGG-GCGA- -5' |
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| 18993 | 5' | -57 | NC_004684.1 | + | 62226 | 0.66 | 0.664774 |
|
Target: 5'- cGCCAccucgacaucggGGUagcgcGGCUGGUCcuGCCCGCUc -3' miRNA: 3'- -CGGUaa----------CUAga---CCGACCAG--CGGGCGA- -5' |
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| 18993 | 5' | -57 | NC_004684.1 | + | 63465 | 0.67 | 0.615142 |
|
Target: 5'- cGCCAUcGG-CUGGC-GcGUCGgCCGCUc -3' miRNA: 3'- -CGGUAaCUaGACCGaC-CAGCgGGCGA- -5' |
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| 18993 | 5' | -57 | NC_004684.1 | + | 66084 | 0.67 | 0.615142 |
|
Target: 5'- cGCCGUUGcaCUGGCcagcgaccUGGagGCCUGCc -3' miRNA: 3'- -CGGUAACuaGACCG--------ACCagCGGGCGa -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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