miRNA: 3'- acUGCGGUCUaGUCCa--GCUCG---------------UCGUC- -5'
miRNA: 3'- aCUgCGGUCuaG-UCC-AGCUCGUCGuc -5'
miRNA: 3'- aCUGCGGUCUAGUCCaGcUCGUCGUc -5'
Results 21 - 23 of 23 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 12364 | 3' | -56 | NC_003324.1 | + | 42425 | 0.67 | 0.592889 |
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Target: 5'- -aGCGCCAGA-CAGGaagCGAGCacccgucaccgaaucGGCGGu -3' miRNA: 3'- acUGCGGUCUaGUCCa--GCUCG---------------UCGUC- -5' |
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| 12364 | 3' | -56 | NC_003324.1 | + | 45309 | 0.66 | 0.643491 |
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Target: 5'- cGA-GCCGGcgCuGGGaUCGAGCAGCu- -3' miRNA: 3'- aCUgCGGUCuaG-UCC-AGCUCGUCGuc -5' |
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| 12364 | 3' | -56 | NC_003324.1 | + | 5453 | 0.75 | 0.223098 |
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Target: 5'- cGACGCUGGGUCAGG-CaGGCGGCGu -3' miRNA: 3'- aCUGCGGUCUAGUCCaGcUCGUCGUc -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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