miRNA: 3'- cgaCUGGAUCGACCgGa---CCUAAgAGA- -5'
miRNA: 3'- -CGACUGG-AUCGACCGgaccUAAGAGa -5'
miRNA: 3'- -CGACUGgauCGACCGgACCUaaGAga -5'
miRNA: 3'- -CGACUGGAUCGACCgGaCCUaagaga -5'
miRNA: 3'- -CGACUGGAUCGACCGGACCUAAGAGA- -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 | |||||||
| 6107 | 5' | -54.4 | NC_001826.1 | + | 3929 | 0.67 | 0.869854 |
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Target: 5'- --aGACCUGGUUGGgUgaugGGAUUgUCUg -3' miRNA: 3'- cgaCUGGAUCGACCgGa---CCUAAgAGA- -5' |
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| 6107 | 5' | -54.4 | NC_001826.1 | + | 107522 | 0.67 | 0.869854 |
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Target: 5'- aGCUGACCuUGGCUGGCacc-AUUUUCc -3' miRNA: 3'- -CGACUGG-AUCGACCGgaccUAAGAGa -5' |
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| 6107 | 5' | -54.4 | NC_001826.1 | + | 12945 | 0.67 | 0.862073 |
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Target: 5'- aGCUGACac-GCUGGCgUGGAagCUg- -3' miRNA: 3'- -CGACUGgauCGACCGgACCUaaGAga -5' |
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| 6107 | 5' | -54.4 | NC_001826.1 | + | 119348 | 0.71 | 0.670961 |
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Target: 5'- cGCUGGCCUAGCUGGgC-GGAa----- -3' miRNA: 3'- -CGACUGGAUCGACCgGaCCUaagaga -5' |
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| 6107 | 5' | -54.4 | NC_001826.1 | + | 6476 | 1.09 | 0.0025 |
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Target: 5'- aGCUGACCUAGCUGGCCUGGAUUCUCUc -3' miRNA: 3'- -CGACUGGAUCGACCGGACCUAAGAGA- -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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