miRNA: 3'- -CAGAGGCUCUuGGACGa---------CUGUCagCG- -5'
miRNA: 3'- caGAGGCuCUUG---------GACGACUGUCaGCg -5'
miRNA: 3'- cAGAGGCuCUUGGACGACUguCA-GCG- -5'
miRNA: 3'- cagaGGCUCUUGG-ACGACUGUCAGcg -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 | |||||||
| 28933 | 3' | -53.9 | NC_006146.1 | + | 121714 | 0.66 | 0.970907 |
|
Target: 5'- gGUCUCCGAGGcCCUGCacaccuucgaGACGG--GCa -3' miRNA: 3'- -CAGAGGCUCUuGGACGa---------CUGUCagCG- -5' |
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| 28933 | 3' | -53.9 | NC_006146.1 | + | 127973 | 0.68 | 0.931 |
|
Target: 5'- -cCUCCG-GAGCuuggcgccgCUGCUGACAGcCGg -3' miRNA: 3'- caGAGGCuCUUG---------GACGACUGUCaGCg -5' |
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| 28933 | 3' | -53.9 | NC_006146.1 | + | 143393 | 0.69 | 0.867464 |
|
Target: 5'- uUCUUCGuGAGCCUGCUGA--GUcCGUg -3' miRNA: 3'- cAGAGGCuCUUGGACGACUguCA-GCG- -5' |
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| 28933 | 3' | -53.9 | NC_006146.1 | + | 165915 | 0.69 | 0.902165 |
|
Target: 5'- ---gCUGAGGACUgUGCUGGCAGUCu- -3' miRNA: 3'- cagaGGCUCUUGG-ACGACUGUCAGcg -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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