miRNA: 3'- aaGAUUUCGaac-----UGCGUCGUGACCGa -5'
miRNA: 3'- -AAGa---UUUCGaACUGCGUCGUga-CCGa -5'
miRNA: 3'- aAGAuuuCGAACUGCGuCGUGaCCGa -5'
miRNA: 3'- aagaUUUCGAACUg---CGUCGUGa-CCGa -5'
miRNA: 3'- -AAGAUUUCGAACUGCGUCGUGACCGA- -5'
Results 1 - 5 of 5 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 | |||||||
| 315 | 5' | -51.8 | AC_000010.1 | + | 10521 | 0.66 | 0.720871 |
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Target: 5'- -gCUGGAGCcgcagcuaACGUGGUACUGGCa -3' miRNA: 3'- aaGAUUUCGaac-----UGCGUCGUGACCGa -5' |
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| 315 | 5' | -51.8 | AC_000010.1 | + | 13967 | 0.66 | 0.685605 |
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Target: 5'- cUUCguugAAAGCgUGAUGCAGCAggcGGCg -3' miRNA: 3'- -AAGa---UUUCGaACUGCGUCGUga-CCGa -5' |
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| 315 | 5' | -51.8 | AC_000010.1 | + | 15710 | 0.68 | 0.577974 |
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Target: 5'- aUCUu--GCUUGGCGC-GCGCaGGCc -3' miRNA: 3'- aAGAuuuCGAACUGCGuCGUGaCCGa -5' |
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| 315 | 5' | -51.8 | AC_000010.1 | + | 17791 | 0.71 | 0.431353 |
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Target: 5'- ---cAAAGCUUGGaacaGCAGCACagGGCa -3' miRNA: 3'- aagaUUUCGAACUg---CGUCGUGa-CCGa -5' |
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| 315 | 5' | -51.8 | AC_000010.1 | + | 10694 | 1.05 | 0.001641 |
|
Target: 5'- gUUCUAAAGCUUGACGCAGCACUGGCUc -3' miRNA: 3'- -AAGAUUUCGAACUGCGUCGUGACCGA- -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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