miRNA: 3'- -CCgGUUCGaCGACCUgcaCUUCCGGU- -5'
miRNA: 3'- -CCGGUU--CGaCGACCUGcACUucCGGU- -5'
miRNA: 3'- -CCGGUUCGaCGACC---UG-CAC----UUCCGGU- -5'
miRNA: 3'- -CCGGU----UCGa-----CGaCCUGCA------------CUUCCGGU- -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 | |||||||
| 22298 | 3' | -57 | NC_005045.1 | + | 34025 | 0.66 | 0.514361 |
|
Target: 5'- cGG-CAGGC-GCUGGA---GGAGGCCAa -3' miRNA: 3'- -CCgGUUCGaCGACCUgcaCUUCCGGU- -5' |
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| 22298 | 3' | -57 | NC_005045.1 | + | 34129 | 0.67 | 0.452128 |
|
Target: 5'- gGGCCGAcuGUcGCUGGACaUGAccGCCGa -3' miRNA: 3'- -CCGGUU--CGaCGACCUGcACUucCGGU- -5' |
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| 22298 | 3' | -57 | NC_005045.1 | + | 34502 | 0.69 | 0.358406 |
|
Target: 5'- uGGUCAGGCcGCUGGcccGCuGUGcaacGGGGCCGa -3' miRNA: 3'- -CCGGUUCGaCGACC---UG-CAC----UUCCGGU- -5' |
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| 22298 | 3' | -57 | NC_005045.1 | + | 34506 | 0.68 | 0.376033 |
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Target: 5'- uGGCCAcgauGGCccaccgGCaGGGCGUcuucaacguuauGAAGGCCAu -3' miRNA: 3'- -CCGGU----UCGa-----CGaCCUGCA------------CUUCCGGU- -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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