miRNA: 3'- -GCGaGUUGUGCUGCGga--CGCU--UAGUa -5'
miRNA: 3'- gCGAGuuGUGCUGCGGaC-GCuuAGUA- -5'
miRNA: 3'- gCGAGUu---GUGCuGCGGACG----CuuAGUa -5'
miRNA: 3'- -GCGAGu--UGUGCUGCgGaCGCUUa--GUa -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 | |||||||
| 5490 | 5' | -53 | NC_001798.1 | + | 132690 | 0.67 | 0.947887 |
|
Target: 5'- aCGC-CGACGCGGCGCaggcGCGGggGUCGc -3' miRNA: 3'- -GCGaGUUGUGCUGCGga--CGCU--UAGUa -5' |
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| 5490 | 5' | -53 | NC_001798.1 | + | 136560 | 0.66 | 0.970004 |
|
Target: 5'- aGCUUccCAUGACGCCgGcCGggUUAUa -3' miRNA: 3'- gCGAGuuGUGCUGCGGaC-GCuuAGUA- -5' |
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| 5490 | 5' | -53 | NC_001798.1 | + | 138001 | 0.67 | 0.956197 |
|
Target: 5'- aGCUCGcgguCGCG-CGCCUGCagcuGggUCGc -3' miRNA: 3'- gCGAGUu---GUGCuGCGGACG----CuuAGUa -5' |
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| 5490 | 5' | -53 | NC_001798.1 | + | 153788 | 0.66 | 0.963555 |
|
Target: 5'- gCGCUCcuuGCGCGGCGgCgGCGGGgggCAg -3' miRNA: 3'- -GCGAGu--UGUGCUGCgGaCGCUUa--GUa -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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