miRNA: 3'- -CCA---UCUCaa-GCGACG-----UCUCGgUCCCA- -5'
miRNA: 3'- ccaUCUCAAGCga--CGUCuCGGUCCCa -5'
miRNA: 3'- ccaUCUCAAGCGa---CGUCuc-GGUCCCa -5'
miRNA: 3'- -CCa--UCUCAAGCGa---------CGUC-UCGGuCCCa -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 | |||||||
| 3639 | 3' | -55.7 | NC_001650.1 | + | 143548 | 0.66 | 0.930761 |
|
Target: 5'- gGGUccgAGAGacaCGCUGUgguagGGGGCgAGGGUg -3' miRNA: 3'- -CCA---UCUCaa-GCGACG-----UCUCGgUCCCA- -5' |
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| 3639 | 3' | -55.7 | NC_001650.1 | + | 26786 | 0.66 | 0.935766 |
|
Target: 5'- --cGGAGUUUGaggaGCGG-GCCGGGGg -3' miRNA: 3'- ccaUCUCAAGCga--CGUCuCGGUCCCa -5' |
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| 3639 | 3' | -55.7 | NC_001650.1 | + | 142748 | 0.66 | 0.940535 |
|
Target: 5'- --cGGAGUUUGCggagGCGGucuCCAGGGc -3' miRNA: 3'- ccaUCUCAAGCGa---CGUCuc-GGUCCCa -5' |
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| 3639 | 3' | -55.7 | NC_001650.1 | + | 46918 | 0.71 | 0.677253 |
|
Target: 5'- gGGgggGGGGUUCGCgaucgcggugGCAGuAGCCuGGGg -3' miRNA: 3'- -CCa--UCUCAAGCGa---------CGUC-UCGGuCCCa -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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