miRNA: 3'- uaagGGGUAUGUGa-GCUACAC---CAAGG- -5'
miRNA: 3'- uaAGGgGUAUGugAgCUA-CACCA--AGG- -5'
miRNA: 3'- uaAG-GGGUAuGUGAG------CUaCACCAAGG- -5'
miRNA: 3'- -UAAGGGGUAUGUGAGCUACACCAAGG- -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
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| Predicted miRNA align pattern | |||||||
| 15416 | 3' | -50.1 | NC_003907.2 | + | 40074 | 0.66 | 0.901815 |
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Target: 5'- ---aCUCAUACACggCGAUGUGcaaGUUCUg -3' miRNA: 3'- uaagGGGUAUGUGa-GCUACAC---CAAGG- -5' |
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| 15416 | 3' | -50.1 | NC_003907.2 | + | 21089 | 0.66 | 0.894482 |
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Target: 5'- -aUCCgUAUGCugUgGGUaGUGGUgcUCCa -3' miRNA: 3'- uaAGGgGUAUGugAgCUA-CACCA--AGG- -5' |
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| 15416 | 3' | -50.1 | NC_003907.2 | + | 15363 | 0.68 | 0.825807 |
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Target: 5'- -aUCuCCCGU-CACUCuccgcaGAaGUGGUUCCu -3' miRNA: 3'- uaAG-GGGUAuGUGAG------CUaCACCAAGG- -5' |
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| 15416 | 3' | -50.1 | NC_003907.2 | + | 42491 | 1.12 | 0.001753 |
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Target: 5'- cAUUCCCCAUACACUCGAUGUGGUUCCa -3' miRNA: 3'- -UAAGGGGUAUGUGAGCUACACCAAGG- -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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