miRNA: 3'- -CUUGUCC-GACAG-CCauaGCGGUAucu -5'
miRNA: 3'- -CUUGucCGACA-GCCAUAGCGGUa--UCU- -5'
miRNA: 3'- -CUUGUCCGACAGCCAUAGCGGUAUCU- -5'
miRNA: 3'- cuuguCCGACAGCCa-UAGCGgUa--UCU- -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 | |||||||
| 4355 | 5' | -51.7 | NC_001720.1 | + | 32551 | 0.66 | 0.829513 |
|
Target: 5'- gGAACGGGuCUGUCaGGaggCGCCAUc-- -3' miRNA: 3'- -CUUGUCC-GACAG-CCauaGCGGUAucu -5' |
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| 4355 | 5' | -51.7 | NC_001720.1 | + | 28818 | 0.68 | 0.702891 |
|
Target: 5'- cGAACc-GCUGUaCGGUGUCGUCGggcGGAg -3' miRNA: 3'- -CUUGucCGACA-GCCAUAGCGGUa--UCU- -5' |
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| 4355 | 5' | -51.7 | NC_001720.1 | + | 7189 | 1.1 | 0.001374 |
|
Target: 5'- cGAACAGGCUGUCGGUAUCGCCAUAGAg -3' miRNA: 3'- -CUUGUCCGACAGCCAUAGCGGUAUCU- -5' |
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| 4355 | 5' | -51.7 | NC_001720.1 | + | 3943 | 0.67 | 0.758283 |
|
Target: 5'- ----cGGCUGUCGGagAUCGCgAgcgGGAa -3' miRNA: 3'- cuuguCCGACAGCCa-UAGCGgUa--UCU- -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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