miRNA: 3'- -GCCUcaa-CGUUUCuUGGACCACCacc -5'
miRNA: 3'- gCCUCAACguuucUUGGACCACCacc -5'
miRNA: 3'- -GCCUCAACGUUUCUUGGACCACCACC- -5'
miRNA: 3'- -GCCUCA---------------A-CGUUUCU-----UGGACCACCa---CC- -5'
miRNA: 3'- gcCUCA-ACGu---UUCUUgGACCACCaCC- -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 | |||||||
| 27121 | 5' | -51.2 | NC_005832.1 | + | 75667 | 0.69 | 0.922103 |
|
Target: 5'- aCGGAcuugGUAGAGuGCCUGGUGGa-- -3' miRNA: 3'- -GCCUcaa-CGUUUCuUGGACCACCacc -5' |
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| 27121 | 5' | -51.2 | NC_005832.1 | + | 76216 | 0.67 | 0.963948 |
|
Target: 5'- aGGGGUUGac---GGCCUGGUGGg-- -3' miRNA: 3'- gCCUCAACguuucUUGGACCACCacc -5' |
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| 27121 | 5' | -51.2 | NC_005832.1 | + | 91822 | 1.13 | 0.003485 |
|
Target: 5'- cCGGAGUUGCAAAGAACCUGGUGGUGGg -3' miRNA: 3'- -GCCUCAACGUUUCUUGGACCACCACC- -5' |
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| 27121 | 5' | -51.2 | NC_005832.1 | + | 100734 | 0.69 | 0.918559 |
|
Target: 5'- cCGGAGUagaguccauuaggauUaGCGAAGAcagguACCUGGUGGcagaGGa -3' miRNA: 3'- -GCCUCA---------------A-CGUUUCU-----UGGACCACCa---CC- -5' |
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| 27121 | 5' | -51.2 | NC_005832.1 | + | 101726 | 0.66 | 0.983084 |
|
Target: 5'- -aGAGUcUGCcguuGAGAAgCUGGUGG-GGu -3' miRNA: 3'- gcCUCA-ACGu---UUCUUgGACCACCaCC- -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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