miRNA: 3'- caauCUGUGCuaUGUUGCGGGUagag -5'
miRNA: 3'- caaUCUGUGCUA-UGUUGCG-GGUagag -5'
miRNA: 3'- caaucuGUGCUAUGUUGCGGgUAGAG- -5'
miRNA: 3'- caAUCUGUGCU------------AUGUUGCGg--GUAGAG- -5'
miRNA: 3'- -CAAUCuGUGCUAUGUUGCGGGUAGAG- -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 | |||||||
| 20933 | 5' | -48.5 | NC_004690.1 | + | 101885 | 0.68 | 0.984031 |
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Target: 5'- ---cGACACG--GCAACGCCCAa--- -3' miRNA: 3'- caauCUGUGCuaUGUUGCGGGUagag -5' |
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| 20933 | 5' | -48.5 | NC_004690.1 | + | 91716 | 0.69 | 0.971552 |
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Target: 5'- --cGGACACGAUcACGGCGCgCCAa--- -3' miRNA: 3'- caaUCUGUGCUA-UGUUGCG-GGUagag -5' |
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| 20933 | 5' | -48.5 | NC_004690.1 | + | 13814 | 0.7 | 0.953247 |
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Target: 5'- -----uUACGAUGCAGCGCUaGUCUCu -3' miRNA: 3'- caaucuGUGCUAUGUUGCGGgUAGAG- -5' |
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| 20933 | 5' | -48.5 | NC_004690.1 | + | 34971 | 0.71 | 0.944098 |
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Target: 5'- -aUGGACAUGGgugccacgaaacUGCAAUGCaaaCAUCUCa -3' miRNA: 3'- caAUCUGUGCU------------AUGUUGCGg--GUAGAG- -5' |
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| 20933 | 5' | -48.5 | NC_004690.1 | + | 101791 | 0.99 | 0.044505 |
|
Target: 5'- gGUUAG-CACGAUACAACGCCCAUCUCc -3' miRNA: 3'- -CAAUCuGUGCUAUGUUGCGGGUAGAG- -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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