miRNA: 3'- -CGGuACG-GGGCCUUGGCGUaaaUCUG- -5'
miRNA: 3'- -CGGUacGGGGCCUUGG----CgUAAAUCUG- -5'
miRNA: 3'- cgGUA-CGGGGCCUUggCGUAaau-CUG- -5'
miRNA: 3'- -CGGUACGGGGCCUUGGCGUAAAUCUG- -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
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| Predicted miRNA align pattern | |||||||
| 22842 | 5' | -53.4 | NC_005135.1 | + | 161864 | 0.66 | 0.977792 |
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Target: 5'- gGCC-UGUaCCCGGAAUUGCAcg-GGAUu -3' miRNA: 3'- -CGGuACG-GGGCCUUGGCGUaaaUCUG- -5' |
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| 22842 | 5' | -53.4 | NC_005135.1 | + | 88849 | 0.67 | 0.956088 |
|
Target: 5'- uGCCAacCCUCGGGACUacauGgGUUUAGGCg -3' miRNA: 3'- -CGGUacGGGGCCUUGG----CgUAAAUCUG- -5' |
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| 22842 | 5' | -53.4 | NC_005135.1 | + | 21181 | 0.68 | 0.93872 |
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Target: 5'- -aCAUaGCCCCGGAGuuGCAUcaauGAUc -3' miRNA: 3'- cgGUA-CGGGGCCUUggCGUAaau-CUG- -5' |
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| 22842 | 5' | -53.4 | NC_005135.1 | + | 127584 | 1.11 | 0.004028 |
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Target: 5'- aGCCAUGCCCCGGAACCGCAUUUAGACc -3' miRNA: 3'- -CGGUACGGGGCCUUGGCGUAAAUCUG- -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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