miRNA: 3'- -CUAGGGCUAGCGGCAUGCCAGCUAGC- -5'
miRNA: 3'- cuaGgGCUAGC-GGCAUGCCaGCUAGC- -5'
miRNA: 3'- cUAGggCUAgCGGCA--UGCCAGCUAGc -5'
miRNA: 3'- -CUAGgGCu----AGCGGCa--UGCCAGCUAgC- -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 |
| Predicted miRNA align pattern | |||||||
| 15643 | 3' | -54.9 | NC_004062.1 | + | 65557 | 1.08 | 0.003873 |
|
Target: 5'- cGAUCCCGAUCGCCGUACGGUCGAUCGc -3' miRNA: 3'- -CUAGGGCUAGCGGCAUGCCAGCUAGC- -5' |
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| 15643 | 3' | -54.9 | NC_004062.1 | + | 65704 | 0.76 | 0.423888 |
|
Target: 5'- --aCgCGAUCGaCCGUACGG-CGAUCGg -3' miRNA: 3'- cuaGgGCUAGC-GGCAUGCCaGCUAGC- -5' |
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| 15643 | 3' | -54.9 | NC_004062.1 | + | 112612 | 0.72 | 0.660369 |
|
Target: 5'- aGUCuuGAUaGCCGUuuGCGGUCGAUUu -3' miRNA: 3'- cUAGggCUAgCGGCA--UGCCAGCUAGc -5' |
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| 15643 | 3' | -54.9 | NC_004062.1 | + | 64762 | 0.69 | 0.824182 |
|
Target: 5'- uGAUCgCGccaauUCGCCGgacACGGUCGGUgGu -3' miRNA: 3'- -CUAGgGCu----AGCGGCa--UGCCAGCUAgC- -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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