miRNA: 3'- uaGCaa-CUCU--------AGUAUCU-GCUCGAGAU- -5'
miRNA: 3'- uaGCaa-CUCU---AGuAUCUGCUCGAGau -5'
miRNA: 3'- uagcaaCUCUAGUAUCUGCUCGAGau -5'
miRNA: 3'- uaGCaa--CUCUAGUAUCugCUCGAgAU- -5'
miRNA: 3'- -UAGCAACUCUAGUAUCUGCUCGAGAU- -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 | |||||||
| 29063 | 5' | -49 | NC_006146.1 | + | 112861 | 0.66 | 0.998785 |
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Target: 5'- -cCGgcgGAGAcuaugcgcUCGUAGGcCGGGCUCUGc -3' miRNA: 3'- uaGCaa-CUCU--------AGUAUCU-GCUCGAGAU- -5' |
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| 29063 | 5' | -49 | NC_006146.1 | + | 40434 | 0.66 | 0.998523 |
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Target: 5'- -cCGgaaGAGAggcUCcUAGACGAGCUCa- -3' miRNA: 3'- uaGCaa-CUCU---AGuAUCUGCUCGAGau -5' |
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| 29063 | 5' | -49 | NC_006146.1 | + | 64909 | 0.7 | 0.975757 |
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Target: 5'- -----aGGGGUCGUGGAUGGGCUCc- -3' miRNA: 3'- uagcaaCUCUAGUAUCUGCUCGAGau -5' |
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| 29063 | 5' | -49 | NC_006146.1 | + | 115659 | 0.73 | 0.901673 |
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Target: 5'- -cCGggcgGGGGUCAUGGugGAGCUgUAg -3' miRNA: 3'- uaGCaa--CUCUAGUAUCugCUCGAgAU- -5' |
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| 29063 | 5' | -49 | NC_006146.1 | + | 97237 | 1.05 | 0.022275 |
|
Target: 5'- cAUCGUUGAGAUCAUAGACGAGCUCUAc -3' miRNA: 3'- -UAGCAACUCUAGUAUCUGCUCGAGAU- -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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