miRNA: 3'- -ACUG-GUcUGC-GCC-CUUGCGCUgCUAC- -5'
miRNA: 3'- aCUGGUCUg---CGCCCU-UGcGCUGCUac -5'
miRNA: 3'- aCUGGUCUGCG----------CCCUuGcGCUGCUAC- -5'
miRNA: 3'- -ACUGGuCUgCGCCC-UUGCGCuGCUAC- -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 |
| Predicted miRNA align pattern | |||||||
| 23326 | 5' | -56 | NC_005259.1 | + | 64902 | 0.67 | 0.704426 |
|
Target: 5'- gUGACaCGaGCGaCGGcGAGCGUGAgGAUGa -3' miRNA: 3'- -ACUG-GUcUGC-GCC-CUUGCGCUgCUAC- -5' |
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| 23326 | 5' | -56 | NC_005259.1 | + | 66935 | 0.68 | 0.619262 |
|
Target: 5'- cGACCGGGgugaGCGGGAcAC-CGGCGAg- -3' miRNA: 3'- aCUGGUCUg---CGCCCU-UGcGCUGCUac -5' |
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| 23326 | 5' | -56 | NC_005259.1 | + | 68304 | 0.66 | 0.735537 |
|
Target: 5'- gGAUCGGGCGCguccggcgacGGGAuCuCGAUGAUGg -3' miRNA: 3'- aCUGGUCUGCG----------CCCUuGcGCUGCUAC- -5' |
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| 23326 | 5' | -56 | NC_005259.1 | + | 68696 | 0.71 | 0.454539 |
|
Target: 5'- aUGAUC-GAgGCGGGcAGCGCGuCGGUGc -3' miRNA: 3'- -ACUGGuCUgCGCCC-UUGCGCuGCUAC- -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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