miRNA: 3'- cUGGU-GaGCGaGCCCCUCG---UGCAGUU- -5'
miRNA: 3'- -CUGGUGA--------GCGAGCCCCUCGuGcaguu -5'
miRNA: 3'- -CUGGUG-AGCG-----------AGC-CCCUCGUGCaGUu -5'
miRNA: 3'- -CUGGUGAGCGAGCCCCUCGUGCAGUU- -5'
Results 21 - 24 of 24 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 | |||||||
| 29396 | 3' | -58.8 | NC_006151.1 | + | 17313 | 0.67 | 0.675926 |
|
Target: 5'- aGCCGuC-CGC-CGGGGGGCgccGCGUCAGc -3' miRNA: 3'- cUGGU-GaGCGaGCCCCUCG---UGCAGUU- -5' |
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| 29396 | 3' | -58.8 | NC_006151.1 | + | 37336 | 0.68 | 0.645461 |
|
Target: 5'- gGGCCGCUgcucacccCGCUCGGGGAGCcCu---- -3' miRNA: 3'- -CUGGUGA--------GCGAGCCCCUCGuGcaguu -5' |
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| 29396 | 3' | -58.8 | NC_006151.1 | + | 29119 | 0.68 | 0.645461 |
|
Target: 5'- gGACCGCaUCGCgggccgggaagUCGcGGGAGCGCG-CGu -3' miRNA: 3'- -CUGGUG-AGCG-----------AGC-CCCUCGUGCaGUu -5' |
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| 29396 | 3' | -58.8 | NC_006151.1 | + | 121109 | 1.06 | 0.002093 |
|
Target: 5'- cGACCACUCGCUCGGGGAGCACGUCAAg -3' miRNA: 3'- -CUGGUGAGCGAGCCCCUCGUGCAGUU- -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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