miRNA: 3'- -UCCCA--------------GAGUaaUCGU-------AGCGCCCGCCU- -5'
miRNA: 3'- uCCCAGaguaaUCGuAGCGCCCGCCu -5'
miRNA: 3'- uCCCAGAGUa--AUCGU--AGCGCC-CgCCU- -5'
miRNA: 3'- uCCCAGAGUaa-----------UCGUAGCG-----------CCCGCCU- -5'
Results 41 - 44 of 44 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 | |||||||
| 5519 | 3' | -56.4 | NC_001798.1 | + | 99249 | 0.68 | 0.813678 |
|
Target: 5'- gGGGGUggcacaccaccgacCUCA--AGUAcaaccccUCGCGGGUGGAg -3' miRNA: 3'- -UCCCA--------------GAGUaaUCGU-------AGCGCCCGCCU- -5' |
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| 5519 | 3' | -56.4 | NC_001798.1 | + | 34305 | 0.68 | 0.817145 |
|
Target: 5'- cGGGUU-----GGC-UCGCGGGCGGu -3' miRNA: 3'- uCCCAGaguaaUCGuAGCGCCCGCCu -5' |
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| 5519 | 3' | -56.4 | NC_001798.1 | + | 143657 | 0.67 | 0.825696 |
|
Target: 5'- cGGGUUUCGaggUAGCGauUCGCGGcGaGGAa -3' miRNA: 3'- uCCCAGAGUa--AUCGU--AGCGCC-CgCCU- -5' |
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| 5519 | 3' | -56.4 | NC_001798.1 | + | 11672 | 0.66 | 0.896541 |
|
Target: 5'- cGGGUCUCGgggggaggacgggGGUGUCGUuguccguggagGGGUGGGu -3' miRNA: 3'- uCCCAGAGUaa-----------UCGUAGCG-----------CCCGCCU- -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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