miRNA: 3'- -CGCCuagGUCca-GCUAgUGCUCCUGC- -5'
miRNA: 3'- -CG-CCUAGguCCAGCU-AgUGC--UCCUGc -5'
miRNA: 3'- cGCC-UAGGU-CCAgCUAGUGcUCCUGc -5'
miRNA: 3'- cGCCUAGGUCCAGCUA---------GUGCU---------------CCugC- -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 | |||||||
| 16316 | 5' | -54.9 | NC_004084.1 | + | 30425 | 0.68 | 0.651048 |
|
Target: 5'- gGCGGcgaCGGaagCGAUgGCGAGGACGa -3' miRNA: 3'- -CGCCuagGUCca-GCUAgUGCUCCUGC- -5' |
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| 16316 | 5' | -54.9 | NC_004084.1 | + | 40725 | 0.68 | 0.683335 |
|
Target: 5'- gGCuGGAUCguGGUCGAcUgGCGgaAGGGCa -3' miRNA: 3'- -CG-CCUAGguCCAGCU-AgUGC--UCCUGc -5' |
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| 16316 | 5' | -54.9 | NC_004084.1 | + | 2839 | 0.67 | 0.70464 |
|
Target: 5'- uCGGcGUCCGcGGUgGAUCGC-AGGACa -3' miRNA: 3'- cGCC-UAGGU-CCAgCUAGUGcUCCUGc -5' |
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| 16316 | 5' | -54.9 | NC_004084.1 | + | 22566 | 0.74 | 0.364974 |
|
Target: 5'- cCGGAUCCGGGUCGAUaucagcuacCACGAcgucgccgacgagacGGugGu -3' miRNA: 3'- cGCCUAGGUCCAGCUA---------GUGCU---------------CCugC- -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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