miRNA: 3'- gcAGCUCGAG-----CGUGGCGaGUCG-GGcu -5'
miRNA: 3'- gCaGCUCGa---GCGUgGCGAGUCG-G-GCU- -5'
miRNA: 3'- -GCaGCUCGAGCG-UGGCGa-----GUCGGgcu -5'
miRNA: 3'- -GCAGCU--CGa-GCGUGGCGa-------GUCGgGCU- -5'
Results 61 - 64 of 64 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 | |||||||
| 28084 | 3' | -60.1 | NC_005887.1 | + | 1312 | 0.69 | 0.250172 |
|
Target: 5'- -cUCGAGCUCgaccuGCACCGCgCGGCgCCa- -3' miRNA: 3'- gcAGCUCGAG-----CGUGGCGaGUCG-GGcu -5' |
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| 28084 | 3' | -60.1 | NC_005887.1 | + | 1230 | 0.68 | 0.3205 |
|
Target: 5'- uGgCGGGCgcugCGCGgCGCUCAGCaCgCGAa -3' miRNA: 3'- gCaGCUCGa---GCGUgGCGAGUCG-G-GCU- -5' |
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| 28084 | 3' | -60.1 | NC_005887.1 | + | 798 | 0.66 | 0.413779 |
|
Target: 5'- gCG-CGAGCUCGCgAUCGCgaucaaCAGCCa-- -3' miRNA: 3'- -GCaGCUCGAGCG-UGGCGa-----GUCGGgcu -5' |
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| 28084 | 3' | -60.1 | NC_005887.1 | + | 535 | 0.68 | 0.305329 |
|
Target: 5'- gCGUCGGccGCcgCGCGCCGCgccggauaCAGCgCGAa -3' miRNA: 3'- -GCAGCU--CGa-GCGUGGCGa-------GUCGgGCU- -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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