miRNA: 3'- -GGUCagCCGGCACCUCuC-CGCaGCGG- -5'
miRNA: 3'- gGUCA--GCCGgCACCUCuCCGCaGCGg -5'
miRNA: 3'- gGUCAGCCg-GCa-CCUCUCCGCaGCGg -5'
miRNA: 3'- -GGUCAgC--CGGCACCucuCCGCAGCGG- -5'
miRNA: 3'- -GGUCA---GCCGG-----------CACCuC---UCCGCaGCGG- -5'
Results 21 - 25 of 25 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 | |||||||
| 1999 | 3' | -60 | NC_001347.2 | + | 68734 | 0.7 | 0.658503 |
|
Target: 5'- gUCGGa-GGCCGUGGAGcGaGUGcCGCCg -3' miRNA: 3'- -GGUCagCCGGCACCUCuC-CGCaGCGG- -5' |
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| 1999 | 3' | -60 | NC_001347.2 | + | 65720 | 0.72 | 0.563524 |
|
Target: 5'- aCGGUggCGGCgGUGGAG-GGCG-CGCg -3' miRNA: 3'- gGUCA--GCCGgCACCUCuCCGCaGCGg -5' |
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| 1999 | 3' | -60 | NC_001347.2 | + | 44089 | 0.68 | 0.760459 |
|
Target: 5'- gUAGUCGGgaCGgaGGAGAGGCGaUGCa -3' miRNA: 3'- gGUCAGCCg-GCa-CCUCUCCGCaGCGg -5' |
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| 1999 | 3' | -60 | NC_001347.2 | + | 39370 | 0.73 | 0.499134 |
|
Target: 5'- cCCGGUgGacGCCGUGGcccGGCGUCGUCg -3' miRNA: 3'- -GGUCAgC--CGGCACCucuCCGCAGCGG- -5' |
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| 1999 | 3' | -60 | NC_001347.2 | + | 684 | 0.66 | 0.871835 |
|
Target: 5'- cCCAGUccaCGGCCuuccagacugcGUGGcGccaAGGCGgCGCCa -3' miRNA: 3'- -GGUCA---GCCGG-----------CACCuC---UCCGCaGCGG- -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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