miRNA: 3'- guCGGAUCGGGU-GGUGGa------CGGUAG-GU- -5'
miRNA: 3'- gUCGGAUCGG-GUGGUg--GACGgUAGgu -5'
miRNA: 3'- -GUCGGAUCGGGUGGUGGACGGUAGGU- -5'
miRNA: 3'- gucGGAUCGGG--UGGUGGac--GGUAGGU- -5'
miRNA: 3'- -GUCGGAUCGGGUGg------UGG------ACGGUAGGu -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 |
| Predicted miRNA align pattern | |||||||
| 10222 | 3' | -59.6 | NC_002665.1 | + | 46269 | 0.7 | 0.406649 |
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Target: 5'- -cGCCUGGCCCAuCCACUuauugggGUCAUCuCAa -3' miRNA: 3'- guCGGAUCGGGU-GGUGGa------CGGUAG-GU- -5' |
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| 10222 | 3' | -59.6 | NC_002665.1 | + | 70060 | 0.66 | 0.610918 |
|
Target: 5'- uGGCCUGGCCaCACCAguaCUGUgGUUg- -3' miRNA: 3'- gUCGGAUCGG-GUGGUg--GACGgUAGgu -5' |
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| 10222 | 3' | -59.6 | NC_002665.1 | + | 17734 | 1.08 | 0.000888 |
|
Target: 5'- aCAGCCUAGCCCACCACCUGCCAUCCAc -3' miRNA: 3'- -GUCGGAUCGGGUGGUGGACGGUAGGU- -5' |
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| 10222 | 3' | -59.6 | NC_002665.1 | + | 10294 | 0.67 | 0.549305 |
|
Target: 5'- --aUCUAGCCCugACCACCccacCCAUCCAu -3' miRNA: 3'- gucGGAUCGGG--UGGUGGac--GGUAGGU- -5' |
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| 10222 | 3' | -59.6 | NC_002665.1 | + | 93288 | 0.67 | 0.559467 |
|
Target: 5'- aCAGCCUAGUCCACaaacacaACCcagaugUGUCAUUCu -3' miRNA: 3'- -GUCGGAUCGGGUGg------UGG------ACGGUAGGu -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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