miRNA: 3'- -GGAAcUUUUUACGGAA---------------CUUGa---ACAGu -5'
miRNA: 3'- gGAACuuUUUACGGAACuuGAACagu -5'
miRNA: 3'- -GGAAC----UUUUUACGGaACUUGAACAGU- -5'
miRNA: 3'- -GGAACUUUUUACGGAACUUGAACAGU- -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 | |||||||
| 6321 | 3' | -41.6 | NC_001846.1 | + | 7007 | 0.68 | 0.998427 |
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Target: 5'- gCCUUuAAGAAUGCCUUacagacguuuaauugGAGCguugUGUCu -3' miRNA: 3'- -GGAAcUUUUUACGGAA---------------CUUGa---ACAGu -5' |
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| 6321 | 3' | -41.6 | NC_001846.1 | + | 22009 | 0.7 | 0.985055 |
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Target: 5'- gCUUGgcAGAUGCCUUGuuCUUGa-- -3' miRNA: 3'- gGAACuuUUUACGGAACuuGAACagu -5' |
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| 6321 | 3' | -41.6 | NC_001846.1 | + | 2258 | 0.81 | 0.587866 |
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Target: 5'- cCUUUGuacaGGAGGUGCC-UGAGCUUGUCAa -3' miRNA: 3'- -GGAAC----UUUUUACGGaACUUGAACAGU- -5' |
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| 6321 | 3' | -41.6 | NC_001846.1 | + | 2355 | 1.15 | 0.006968 |
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Target: 5'- aCCUUGAAAAAUGCCUUGAACUUGUCAa -3' miRNA: 3'- -GGAACUUUUUACGGAACUUGAACAGU- -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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