miRNA: 3'- aUUGAAGGC-------UGGCUaau-----AGCAACUGU- -5'
miRNA: 3'- aUUGA--AGGC------------UGGCUAAUAGCaACUGU- -5'
miRNA: 3'- aUUGAAGGcuGGCUAAUA-GCAACuGU- -5'
miRNA: 3'- aUUGaa--GGCUGGCuaAUaGCAACUGu -5'
miRNA: 3'- -AUUGAAGGCUGGCUAAUAGCAACUGU- -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 | |||||||
| 22655 | 3' | -46.1 | NC_005091.1 | + | 6831 | 0.66 | 0.996885 |
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Target: 5'- gGACUUCCGcgaccguGCCGGgcugcuucUUGUUGGCGa -3' miRNA: 3'- aUUGAAGGC-------UGGCUaau-----AGCAACUGU- -5' |
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| 22655 | 3' | -46.1 | NC_005091.1 | + | 1626 | 0.67 | 0.992819 |
|
Target: 5'- aAACUccUUCGuggaaaagugaaACCGAUUAUCG-UGACAa -3' miRNA: 3'- aUUGA--AGGC------------UGGCUAAUAGCaACUGU- -5' |
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| 22655 | 3' | -46.1 | NC_005091.1 | + | 27033 | 0.67 | 0.988732 |
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Target: 5'- cGACUUCCuuCUGGUUAUuCGUUGcCAu -3' miRNA: 3'- aUUGAAGGcuGGCUAAUA-GCAACuGU- -5' |
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| 22655 | 3' | -46.1 | NC_005091.1 | + | 15177 | 0.69 | 0.969049 |
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Target: 5'- gGACgagaCCGGCCGcgUG-CGUUGACc -3' miRNA: 3'- aUUGaa--GGCUGGCuaAUaGCAACUGu -5' |
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| 22655 | 3' | -46.1 | NC_005091.1 | + | 1493 | 1.09 | 0.0104 |
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Target: 5'- gUAACUUCCGACCGAUUAUCGUUGACAa -3' miRNA: 3'- -AUUGAAGGCUGGCUAAUAGCAACUGU- -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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