miRNA: 3'- -CGuAC-GCCA--CCGGGACu--GCGGUGGCU- -5'
miRNA: 3'- -CGuACGCCacCGGGAC----------UGCGGUGGCU- -5'
miRNA: 3'- cguaCGCCACCGGGa---------CUGCG-GUGGCU- -5'
miRNA: 3'- -CGuACGCCA--CCGGGa-CUGCGGUGGCU- -5'
miRNA: 3'- -CGUACGCCACCGGGACUGCGGUGGCU- -5'
Results 41 - 45 of 45 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 11482 | 3' | -60.2 | NC_003085.1 | + | 34061 | 0.72 | 0.187803 |
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Target: 5'- cGC-UGcCGGUuuGGCUCUGuucCGCCGCCGAu -3' miRNA: 3'- -CGuAC-GCCA--CCGGGACu--GCGGUGGCU- -5' |
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| 11482 | 3' | -60.2 | NC_003085.1 | + | 6700 | 0.73 | 0.160212 |
|
Target: 5'- gGCuUGCGGccGCCCUGcaccgcacccAUGCCGCCGAu -3' miRNA: 3'- -CGuACGCCacCGGGAC----------UGCGGUGGCU- -5' |
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| 11482 | 3' | -60.2 | NC_003085.1 | + | 12300 | 0.73 | 0.160212 |
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Target: 5'- ---cGCGGUGGUCCgcuggguugcGGCGCaCACCGAc -3' miRNA: 3'- cguaCGCCACCGGGa---------CUGCG-GUGGCU- -5' |
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| 11482 | 3' | -60.2 | NC_003085.1 | + | 1166 | 0.74 | 0.118976 |
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Target: 5'- cGCuUGCGGUagGGCCUacGACGCUGCCGGg -3' miRNA: 3'- -CGuACGCCA--CCGGGa-CUGCGGUGGCU- -5' |
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| 11482 | 3' | -60.2 | NC_003085.1 | + | 15358 | 1.1 | 0.000246 |
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Target: 5'- uGCAUGCGGUGGCCCUGACGCCACCGAa -3' miRNA: 3'- -CGUACGCCACCGGGACUGCGGUGGCU- -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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