miRNA: 3'- uGGUCCGCguCCCGau-GGUCGa------GGGG- -5'
miRNA: 3'- -UGGu-CCGcGUCCCGAuGGu----------CGAGGGG- -5'
miRNA: 3'- -UGGU-CCGCGUCC---------CGA----UGGUc---GAGGGG- -5'
Results 41 - 43 of 43 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 | |||||||
| 18398 | 5' | -62.3 | NC_004681.1 | + | 64772 | 0.71 | 0.190117 |
|
Target: 5'- uUCGGGCGguGGGCauuCCGGUcgucucgCCCCa -3' miRNA: 3'- uGGUCCGCguCCCGau-GGUCGa------GGGG- -5' |
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| 18398 | 5' | -62.3 | NC_004681.1 | + | 66631 | 0.66 | 0.423092 |
|
Target: 5'- gACCucGGC-CAGGGCUuCCuugagugacauGUUCCCCu -3' miRNA: 3'- -UGGu-CCGcGUCCCGAuGGu----------CGAGGGG- -5' |
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| 18398 | 5' | -62.3 | NC_004681.1 | + | 69213 | 0.68 | 0.339595 |
|
Target: 5'- gGCCAgGGCGCGGGcgaggcggcGCUucacACCAcacaCUCCCCc -3' miRNA: 3'- -UGGU-CCGCGUCC---------CGA----UGGUc---GAGGGG- -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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