miRNA: 3'- aCUGGCAGUG-------CuuUGUaagCUAGgAG- -5'
miRNA: 3'- -ACUGGCAG-UGCUUUguaaGCUAGGAG- -5'
miRNA: 3'- aCUGGCAGUGCUuuGuAAG-CUAGG-AG- -5'
miRNA: 3'- -ACUGGCAGUGCUUUGUAAGCUAGGAG- -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 | |||||||
| 17617 | 5' | -48.6 | NC_004466.2 | + | 23290 | 0.67 | 0.933315 |
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Target: 5'- aGGCCGUCAUcucagauGggGCAguaGAUCgUCu -3' miRNA: 3'- aCUGGCAGUG-------CuuUGUaagCUAGgAG- -5' |
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| 17617 | 5' | -48.6 | NC_004466.2 | + | 35840 | 0.69 | 0.861804 |
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Target: 5'- uUGGCCGUCaAUGAAGa---CGGUCUUCg -3' miRNA: 3'- -ACUGGCAG-UGCUUUguaaGCUAGGAG- -5' |
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| 17617 | 5' | -48.6 | NC_004466.2 | + | 35767 | 0.71 | 0.752655 |
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Target: 5'- aGACCGUCACGA--CcUUCgGGUCCaUCg -3' miRNA: 3'- aCUGGCAGUGCUuuGuAAG-CUAGG-AG- -5' |
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| 17617 | 5' | -48.6 | NC_004466.2 | + | 28090 | 1.12 | 0.002725 |
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Target: 5'- uUGACCGUCACGAAACAUUCGAUCCUCg -3' miRNA: 3'- -ACUGGCAGUGCUUUGUAAGCUAGGAG- -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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