miRNA: 3'- -GUGGaGGGUGCACCGGU-C-UCGGgGGC- -5'
miRNA: 3'- gUGGa--GGGUGCA-----------CCGGUC-UCGGGGGc -5'
miRNA: 3'- gUGGAGGGUg--------CAC-CGGucUCGGGGGC- -5'
Results 21 - 23 of 23 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 | |||||||
| 13286 | 3' | -63.5 | NC_003409.1 | + | 42029 | 0.74 | 0.18912 |
|
Target: 5'- cCACC-CCCACGUGGCCAuGaAGCUgCUGa -3' miRNA: 3'- -GUGGaGGGUGCACCGGU-C-UCGGgGGC- -5' |
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| 13286 | 3' | -63.5 | NC_003409.1 | + | 19277 | 0.74 | 0.171747 |
|
Target: 5'- aGCCaaaCCCACGUcgcagcggcaaGGCCAGcGGCCCCCa -3' miRNA: 3'- gUGGa--GGGUGCA-----------CCGGUC-UCGGGGGc -5' |
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| 13286 | 3' | -63.5 | NC_003409.1 | + | 111956 | 0.66 | 0.548287 |
|
Target: 5'- uGCUUCCCGagacccccaGUGaGUCcuGGCCCCCGg -3' miRNA: 3'- gUGGAGGGUg--------CAC-CGGucUCGGGGGC- -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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