miRNA: 3'- gUGUACuCGCAGGg--GUGGUCGuugAC- -5'
miRNA: 3'- gUGUA----CUCGcAGgGGUGGUCGUUGAc -5'
miRNA: 3'- gUGuACUCG---CAGGGGUGGUCGuu-GAC- -5'
miRNA: 3'- -GUGUACUCGCAGGGGUGGUCGUUGAC- -5'
Results 1 - 4 of 4 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 | |||||||
| 33011 | 5' | -55.4 | NC_007456.1 | + | 28259 | 0.68 | 0.47651 |
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Target: 5'- gGCAUG-GUGUCCaaaCACCAGCuuaUGg -3' miRNA: 3'- gUGUACuCGCAGGg--GUGGUCGuugAC- -5' |
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| 33011 | 5' | -55.4 | NC_007456.1 | + | 26803 | 0.68 | 0.466091 |
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Target: 5'- gACAUggaaGAGUaUCgCCACCAGCGACUu -3' miRNA: 3'- gUGUA----CUCGcAGgGGUGGUCGUUGAc -5' |
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| 33011 | 5' | -55.4 | NC_007456.1 | + | 20018 | 0.72 | 0.286883 |
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Target: 5'- gGCuUGAGCcauGUCCUCACCAGCuccCUGa -3' miRNA: 3'- gUGuACUCG---CAGGGGUGGUCGuu-GAC- -5' |
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| 33011 | 5' | -55.4 | NC_007456.1 | + | 29818 | 1.09 | 0.000597 |
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Target: 5'- cCACAUGAGCGUCCCCACCAGCAACUGa -3' miRNA: 3'- -GUGUACUCGCAGGGGUGGUCGUUGAC- -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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