miRNA: 3'- caUUUUGGUCGG----------UCaaUCa-CAAAUUC- -5'
miRNA: 3'- cauuUUGGuCGGUCA-AUCACAAAUUc -5'
miRNA: 3'- -CAUUUUGGUCGGUCaa---UCacaaauuc -5'
miRNA: 3'- caUUUUGG-----UCGGUCAAUCACaaAUUC- -5'
Results 21 - 24 of 24 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 | |||||||
| 3590 | 3' | -41.9 | NC_001650.1 | + | 86195 | 0.66 | 1 |
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Target: 5'- -gAGGGCCAGCCcaucaacgucAGggAGgaGUUUGAGa -3' miRNA: 3'- caUUUUGGUCGG----------UCaaUCa-CAAAUUC- -5' |
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| 3590 | 3' | -41.9 | NC_001650.1 | + | 96677 | 0.66 | 1 |
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Target: 5'- ---cGACC-GUCAGUaUAGUGUUUAAu -3' miRNA: 3'- cauuUUGGuCGGUCA-AUCACAAAUUc -5' |
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| 3590 | 3' | -41.9 | NC_001650.1 | + | 110482 | 0.67 | 1 |
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Target: 5'- gGUGGAGCCGGCCAGgcaagAGg------- -3' miRNA: 3'- -CAUUUUGGUCGGUCaa---UCacaaauuc -5' |
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| 3590 | 3' | -41.9 | NC_001650.1 | + | 44307 | 0.66 | 1 |
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Target: 5'- -aGAGACUcucuaAGCUAGUUAGUGa-UAAGu -3' miRNA: 3'- caUUUUGG-----UCGGUCAAUCACaaAUUC- -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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