miRNA: 3'- gCCUCUCCuAGCagg---CUCUGUCCUgu -5'
miRNA: 3'- -GCCUcuCCu--AGCaGGCUCUGUCCUgU- -5'
miRNA: 3'- gCCUCUccUAgCAGGCU-----------CUGUCCUGU- -5'
miRNA: 3'- -GCCU-CUCCUAGC-AGGCUC-UGUCcugu -5'
miRNA: 3'- -GCCUCUCCUAGCAGGCUCUGUCCUGU- -5'
Results 41 - 45 of 45 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 | |||||||
| 16002 | 3' | -55.7 | NC_004065.1 | + | 145719 | 0.66 | 0.961361 |
|
Target: 5'- aGGAGAGG-UCGguggagGAGGCGGGAg- -3' miRNA: 3'- gCCUCUCCuAGCagg---CUCUGUCCUgu -5' |
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| 16002 | 3' | -55.7 | NC_004065.1 | + | 59793 | 0.67 | 0.954193 |
|
Target: 5'- aCGGGccGGuucUCG-CCGAGACAGGAgAg -3' miRNA: 3'- -GCCUcuCCu--AGCaGGCUCUGUCCUgU- -5' |
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| 16002 | 3' | -55.7 | NC_004065.1 | + | 89798 | 0.67 | 0.954193 |
|
Target: 5'- uGGAGAacAUgGUCCGGuaauacggaacGACAGGACGg -3' miRNA: 3'- gCCUCUccUAgCAGGCU-----------CUGUCCUGU- -5' |
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| 16002 | 3' | -55.7 | NC_004065.1 | + | 227890 | 0.67 | 0.950293 |
|
Target: 5'- gCGGAcGAGGAUCGcUCCGAGgAUAGc--- -3' miRNA: 3'- -GCCU-CUCCUAGC-AGGCUC-UGUCcugu -5' |
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| 16002 | 3' | -55.7 | NC_004065.1 | + | 53516 | 1.08 | 0.00621 |
|
Target: 5'- uCGGAGAGGAUCGUCCGAGACAGGACAc -3' miRNA: 3'- -GCCUCUCCUAGCAGGCUCUGUCCUGU- -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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