miRNA: 3'- -CGGuACCGCa-------GGGGCUaCACCC-CGUc -5'
miRNA: 3'- -CGGUACCGcAGGGGcuacACCCCGUC- -5'
miRNA: 3'- cGGUACCGCAGGggCuaCA---CCCCguC- -5'
miRNA: 3'- cGGUAcCGC-----AGGGGCUA-CACCCCGUc -5'
miRNA: 3'- -CGGUACCGCAGGGGCUACACCCCGUC- -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 | |||||||
| 6290 | 3' | -60.2 | NC_001844.1 | + | 6147 | 0.66 | 0.743129 |
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Target: 5'- uGCCcUGGCGcuuaucggCCUCGAgGUGGGuGCGc -3' miRNA: 3'- -CGGuACCGCa-------GGGGCUaCACCC-CGUc -5' |
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| 6290 | 3' | -60.2 | NC_001844.1 | + | 140485 | 0.67 | 0.645317 |
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Target: 5'- gGCCAUGGCcUCUCCcagcUGGGGUGGu -3' miRNA: 3'- -CGGUACCGcAGGGGcuacACCCCGUC- -5' |
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| 6290 | 3' | -60.2 | NC_001844.1 | + | 12831 | 0.71 | 0.435053 |
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Target: 5'- aCCAUGGCGUCUuuGgcGUuuuGGGGguGc -3' miRNA: 3'- cGGUACCGCAGGggCuaCA---CCCCguC- -5' |
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| 6290 | 3' | -60.2 | NC_001844.1 | + | 141827 | 0.72 | 0.392658 |
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Target: 5'- cCCAUaGCGcacccUCCCCGGUgGUGGGGCGu -3' miRNA: 3'- cGGUAcCGC-----AGGGGCUA-CACCCCGUc -5' |
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| 6290 | 3' | -60.2 | NC_001844.1 | + | 142145 | 1.11 | 0.000855 |
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Target: 5'- cGCCAUGGCGUCCCCGAUGUGGGGCAGg -3' miRNA: 3'- -CGGUACCGCAGGGGCUACACCCCGUC- -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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