miRNA: 3'- cUGGUGa--GCGAGCCCCu--CGUGCaGUU- -5'
miRNA: 3'- -CUGGuGAGCGa--GCCCCU---CGUGCAguu -5'
miRNA: 3'- -CUG-GUGAGCGa--GCCC-CUCGUGCaGUU- -5'
miRNA: 3'- -CUGGU--GAGc-------GAGCCC-CUCGUGCAGuu -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
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| Predicted miRNA align pattern | |||||||
| 29396 | 3' | -58.8 | NC_006151.1 | + | 121189 | 0.66 | 0.754951 |
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Target: 5'- uGCUGCacgCGCUCGGGGcgcGCACG-CAGc -3' miRNA: 3'- cUGGUGa--GCGAGCCCCu--CGUGCaGUU- -5' |
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| 29396 | 3' | -58.8 | NC_006151.1 | + | 99039 | 0.66 | 0.754951 |
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Target: 5'- cGGCC-CUCGCgcaCGGGGAcgcGUACGUg-- -3' miRNA: 3'- -CUGGuGAGCGa--GCCCCU---CGUGCAguu -5' |
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| 29396 | 3' | -58.8 | NC_006151.1 | + | 115554 | 0.66 | 0.764441 |
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Target: 5'- cGGCgUACUCGCccgCGGGcGGGCGCG-CGGg -3' miRNA: 3'- -CUG-GUGAGCGa--GCCC-CUCGUGCaGUU- -5' |
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| 29396 | 3' | -58.8 | NC_006151.1 | + | 134971 | 0.66 | 0.764441 |
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Target: 5'- cGGCCAgcCUCcgggccuuCUCGGGcGGGCGCGUCu- -3' miRNA: 3'- -CUGGU--GAGc-------GAGCCC-CUCGUGCAGuu -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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