miRNA: 3'- gCUCAuGCCCuuaGG-ACGGC-UAGGCg -5'
miRNA: 3'- gcUCAUGCCCUUa-GGACggCUAGGCg -5'
miRNA: 3'- gcUCAUGCC-CuuA-----------GGACG-GCUAGGCG- -5'
miRNA: 3'- gCUC--AUGC-CCUua---GGACGGCUA--GGCG- -5'
miRNA: 3'- -GCUCA------UGCCCuuAG-GACG-GCUAGGcg -5'
Results 1 - 5 of 5 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 | |||||||
| 20895 | 3' | -54.7 | NC_004689.1 | + | 1783 | 0.66 | 0.828307 |
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Target: 5'- uGGGU-CGGGuugCCuUGCCGcGUCCGg -3' miRNA: 3'- gCUCAuGCCCuuaGG-ACGGC-UAGGCg -5' |
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| 20895 | 3' | -54.7 | NC_004689.1 | + | 64819 | 0.7 | 0.604391 |
|
Target: 5'- -cAGUGCGGGAAcgUCUGuuGAUUCGa -3' miRNA: 3'- gcUCAUGCCCUUa-GGACggCUAGGCg -5' |
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| 20895 | 3' | -54.7 | NC_004689.1 | + | 7694 | 0.72 | 0.520147 |
|
Target: 5'- -uGGUGCGGuGggUguacaucgaacCCUGCaCGAUCCGUg -3' miRNA: 3'- gcUCAUGCC-CuuA-----------GGACG-GCUAGGCG- -5' |
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| 20895 | 3' | -54.7 | NC_004689.1 | + | 44881 | 0.72 | 0.509907 |
|
Target: 5'- gGAGcuUGCGcGGAucgggCCUGCCGGUcaCCGCu -3' miRNA: 3'- gCUC--AUGC-CCUua---GGACGGCUA--GGCG- -5' |
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| 20895 | 3' | -54.7 | NC_004689.1 | + | 24246 | 0.76 | 0.298157 |
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Target: 5'- aCGAGUguugucACGGGggUCaCUGCcCGGUCCa- -3' miRNA: 3'- -GCUCA------UGCCCuuAG-GACG-GCUAGGcg -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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