miRNA: 3'- uuuaucCGuucAUGGCUUCAUGGACG- -5'
miRNA: 3'- uuuAUCCGuUCA------UGGCUUCAUGGACG- -5'
miRNA: 3'- uuuauCCGUUCAUGGcuUCAUGGACG- -5'
miRNA: 3'- -UUUAUCCGUUCAUGGCUUCAUGGACG- -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 | |||||||
| 17738 | 5' | -47.7 | NC_004616.1 | + | 30498 | 0.67 | 0.925667 |
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Target: 5'- -----uGCuuuUGCUGGAGUACCUGCa -3' miRNA: 3'- uuuaucCGuucAUGGCUUCAUGGACG- -5' |
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| 17738 | 5' | -47.7 | NC_004616.1 | + | 16137 | 0.69 | 0.882172 |
|
Target: 5'- --cUAGGU-AGUcgauuaACCGGAGUAUCUGUu -3' miRNA: 3'- uuuAUCCGuUCA------UGGCUUCAUGGACG- -5' |
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| 17738 | 5' | -47.7 | NC_004616.1 | + | 44261 | 0.74 | 0.588894 |
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Target: 5'- ----uGGCAGGUACUucGGUACUUGCc -3' miRNA: 3'- uuuauCCGUUCAUGGcuUCAUGGACG- -5' |
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| 17738 | 5' | -47.7 | NC_004616.1 | + | 44333 | 1.1 | 0.003645 |
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Target: 5'- aAAAUAGGCAAGUACCGAAGUACCUGCc -3' miRNA: 3'- -UUUAUCCGUUCAUGGCUUCAUGGACG- -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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