miRNA: 3'- -GCGGCGGGgUAUUUcAUGCgG-GUGcu -5'
miRNA: 3'- -GCG-GCGGGgUaUUuCAUGCGGgUGCU- -5'
miRNA: 3'- gCGGCGG-G-GUAUUUCa-UGCGGGUGcu -5'
miRNA: 3'- -GCGGCGGGGuauuuca-UGCGGGUGCU- -5'
miRNA: 3'- -GCGGCGGGGUAUUUCAUGCGGGUGCU- -5'
Results 1 - 5 of 5 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 | |||||||
| 2332 | 5' | -56 | NC_001416.1 | + | 14504 | 0.69 | 0.483608 |
|
Target: 5'- gCGCCGCCCgGUGAGaUGCGgCaCACa- -3' miRNA: 3'- -GCGGCGGGgUAUUUcAUGCgG-GUGcu -5' |
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| 2332 | 5' | -56 | NC_001416.1 | + | 14146 | 0.68 | 0.514753 |
|
Target: 5'- gCGCaCGCCCgGcGAuGUGCGCCaGCGGa -3' miRNA: 3'- -GCG-GCGGGgUaUUuCAUGCGGgUGCU- -5' |
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| 2332 | 5' | -56 | NC_001416.1 | + | 13376 | 0.74 | 0.235718 |
|
Target: 5'- uGCCGCCaCuCAUAAGGcgGCGUCCACa- -3' miRNA: 3'- gCGGCGG-G-GUAUUUCa-UGCGGGUGcu -5' |
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| 2332 | 5' | -56 | NC_001416.1 | + | 8325 | 0.73 | 0.285092 |
|
Target: 5'- aCGCUGCCCCuuuuuacgACGCCUGCGGc -3' miRNA: 3'- -GCGGCGGGGuauuuca-UGCGGGUGCU- -5' |
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| 2332 | 5' | -56 | NC_001416.1 | + | 4079 | 1.08 | 0.000824 |
|
Target: 5'- uCGCCGCCCCAUAAAGUACGCCCACGAc -3' miRNA: 3'- -GCGGCGGGGUAUUUCAUGCGGGUGCU- -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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