miRNA: 3'- uuCUUUGCgACCUUCaUAu-CGACAGa -5'
miRNA: 3'- uuCUUUGCGaCCuuCAUAUcGACAga -5'
miRNA: 3'- -UUCUUugCga---CCUUCAUAUCGACaGa -5'
miRNA: 3'- -UUCuuUGCG-ACCUUCA----------UAUCGACAGa -5'
miRNA: 3'- -UUCUUUGCGACCUUCAUAUCGACAGA- -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
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| Predicted miRNA align pattern | |||||||
| 2685 | 3' | -47.9 | NC_001491.2 | + | 142664 | 0.66 | 0.999225 |
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Target: 5'- -cGAGGCGgUGGAAGcGUuuGUUGUCg -3' miRNA: 3'- uuCUUUGCgACCUUCaUAu-CGACAGa -5' |
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| 2685 | 3' | -47.9 | NC_001491.2 | + | 75478 | 0.67 | 0.998254 |
|
Target: 5'- -uGAAGCGC-GGggGUGUAaCUGUg- -3' miRNA: 3'- uuCUUUGCGaCCuuCAUAUcGACAga -5' |
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| 2685 | 3' | -47.9 | NC_001491.2 | + | 128415 | 0.68 | 0.995012 |
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Target: 5'- aGAGAAugGggagaGGGAGUAUAGCUG-Ca -3' miRNA: 3'- -UUCUUugCga---CCUUCAUAUCGACaGa -5' |
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| 2685 | 3' | -47.9 | NC_001491.2 | + | 145721 | 0.73 | 0.923698 |
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Target: 5'- uGGGcgGCGCuUGGGAGUuuaaagagugGUGGCUGUCg -3' miRNA: 3'- -UUCuuUGCG-ACCUUCA----------UAUCGACAGa -5' |
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| 2685 | 3' | -47.9 | NC_001491.2 | + | 55608 | 1.06 | 0.022502 |
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Target: 5'- aAAGAAACGCUGGAAGUAUAGCUGUCUu -3' miRNA: 3'- -UUCUUUGCGACCUUCAUAUCGACAGA- -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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