miRNA: 3'- uuACGUAGUAuCAGGUCACAGG--------UCCc -5'
miRNA: 3'- -UUACGUAGUAUCAGGUCACAGGUCCC- -5'
miRNA: 3'- uuaCGUaGUAUCAG-GUCacaGGUCCC- -5'
miRNA: 3'- uuaCGUa------GUAUCAGGU-----Ca---CAGGUCCC- -5'
miRNA: 3'- uuaCGUAgU-AUCAGGuCACAGGUCcc -5'
Results 21 - 25 of 25 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 | |||||||
| 33602 | 5' | -51.2 | NC_007605.1 | + | 124603 | 0.69 | 0.951141 |
|
Target: 5'- -cUGCAUCGUcGUCCGGUGUUCcgugauguAGGc -3' miRNA: 3'- uuACGUAGUAuCAGGUCACAGG--------UCCc -5' |
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| 33602 | 5' | -51.2 | NC_007605.1 | + | 146324 | 1.09 | 0.007883 |
|
Target: 5'- aAAUGCAUCAUAGUCCAGUGUCCAGGGa -3' miRNA: 3'- -UUACGUAGUAUCAGGUCACAGGUCCC- -5' |
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| 33602 | 5' | -51.2 | NC_007605.1 | + | 157054 | 0.66 | 0.992775 |
|
Target: 5'- --aGCA-CAUGGUCuCGGag-CCAGGGa -3' miRNA: 3'- uuaCGUaGUAUCAG-GUCacaGGUCCC- -5' |
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| 33602 | 5' | -51.2 | NC_007605.1 | + | 167935 | 0.67 | 0.98418 |
|
Target: 5'- --gGCAacgaaggCGUAGUCCGccagcGgcagGUCCAGGGg -3' miRNA: 3'- uuaCGUa------GUAUCAGGU-----Ca---CAGGUCCC- -5' |
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| 33602 | 5' | -51.2 | NC_007605.1 | + | 170797 | 0.69 | 0.946761 |
|
Target: 5'- --gGCAUgGuUAGUCCuGUGUCCAGa- -3' miRNA: 3'- uuaCGUAgU-AUCAGGuCACAGGUCcc -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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