miRNA: 3'- gCUGCGAGGU--CCAGGUCcag-CGCG--AG- -5'
miRNA: 3'- -GCUGCGAGGUCCAGGUCCAGCGCGAG- -5'
miRNA: 3'- gcUGCGAGGUCCAGGucCAGCGCGag -5'
miRNA: 3'- gCUGCGAG-GUC-CaGGUCC------------AGCGCGAG- -5'
Results 1 - 4 of 4 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 | |||||||
| 9811 | 5' | -60.1 | NC_002593.1 | + | 91317 | 0.66 | 0.626396 |
|
Target: 5'- uGAUGCUCCAuuGGUCCAGucuaGUGCcuUCg -3' miRNA: 3'- gCUGCGAGGU--CCAGGUCcag-CGCG--AG- -5' |
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| 9811 | 5' | -60.1 | NC_002593.1 | + | 51725 | 1.09 | 0.000782 |
|
Target: 5'- cCGACGCUCCAGGUCCAGGUCGCGCUCu -3' miRNA: 3'- -GCUGCGAGGUCCAGGUCCAGCGCGAG- -5' |
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| 9811 | 5' | -60.1 | NC_002593.1 | + | 46607 | 0.7 | 0.380139 |
|
Target: 5'- -aACGUUCCGGGUCU--GUCGCGCg- -3' miRNA: 3'- gcUGCGAGGUCCAGGucCAGCGCGag -5' |
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| 9811 | 5' | -60.1 | NC_002593.1 | + | 42715 | 0.66 | 0.605985 |
|
Target: 5'- gGGCGUUCaCAGcGaCCAGGauaagagucugaUUGCGCUCg -3' miRNA: 3'- gCUGCGAG-GUC-CaGGUCC------------AGCGCGAG- -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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