miRNA: 3'- -GGUUGCu-CC-UCCUUAU--AGCaGCCuCG- -5'
miRNA: 3'- gguuGCUCCUCCuUAUa-GCAGCCUCG- -5'
miRNA: 3'- ggUUGCuc--CUCCUUAUAGCaGCCUCG- -5'
miRNA: 3'- -GGUUGCUCCUCCUUAUAGCAGCCUCG- -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 | |||||||
| 3373 | 5' | -50.1 | NC_001559.1 | + | 116748 | 0.66 | 0.99944 |
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Target: 5'- gUCAACGcuGGaAGGAGUGacUCGcCGGcGCa -3' miRNA: 3'- -GGUUGCu-CC-UCCUUAU--AGCaGCCuCG- -5' |
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| 3373 | 5' | -50.1 | NC_001559.1 | + | 116585 | 0.69 | 0.990439 |
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Target: 5'- ---uUGAGGAGGuGUAacCGUUGGAGUa -3' miRNA: 3'- gguuGCUCCUCCuUAUa-GCAGCCUCG- -5' |
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| 3373 | 5' | -50.1 | NC_001559.1 | + | 46220 | 0.7 | 0.980363 |
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Target: 5'- -aAACGuaauGAGGAGUAUUG-CGGGGCu -3' miRNA: 3'- ggUUGCuc--CUCCUUAUAGCaGCCUCG- -5' |
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| 3373 | 5' | -50.1 | NC_001559.1 | + | 51234 | 1.15 | 0.006953 |
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Target: 5'- aCCAACGAGGAGGAAUAUCGUCGGAGCu -3' miRNA: 3'- -GGUUGCUCCUCCUUAUAGCAGCCUCG- -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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