miRNA: 3'- -CCAGCGU---CUaUUGGggCCCGUu----GGAG- -5'
miRNA: 3'- cCAGCguCua---------UUGGGG--------CCCGUUGGAG- -5'
miRNA: 3'- -CCAGC-GUCUauuGGGGCCCGu--UGGAG- -5'
miRNA: 3'- ccaGCguCUA----UUG--GGGCCCGU---UGGAG- -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 | |||||||
| 27170 | 3' | -55.8 | NC_005832.1 | + | 48986 | 0.72 | 0.521694 |
|
Target: 5'- aGGUCGCAcucGAcGGCCuuGGGCGcagucCCUCu -3' miRNA: 3'- -CCAGCGU---CUaUUGGggCCCGUu----GGAG- -5' |
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| 27170 | 3' | -55.8 | NC_005832.1 | + | 40909 | 0.72 | 0.509694 |
|
Target: 5'- cGUCGguGccgggguggugGACCCCgacuacagGGGCAACCUCg -3' miRNA: 3'- cCAGCguCua---------UUGGGG--------CCCGUUGGAG- -5' |
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| 27170 | 3' | -55.8 | NC_005832.1 | + | 97208 | 0.72 | 0.501759 |
|
Target: 5'- aGGUCGaCAGGgccUCCUGGGCcuuGCCUCc -3' miRNA: 3'- -CCAGC-GUCUauuGGGGCCCGu--UGGAG- -5' |
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| 27170 | 3' | -55.8 | NC_005832.1 | + | 49726 | 0.66 | 0.864426 |
|
Target: 5'- --aCGguGAUcuugGGCuuCCCGGGCAuggACCUCc -3' miRNA: 3'- ccaGCguCUA----UUG--GGGCCCGU---UGGAG- -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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