miRNA: 3'- -GUGaCAcUCUCG----UGGGCGUCU-----CCUUG- -5'
miRNA: 3'- gUGACAcucUCGUGGgCGUCUCCuuG- -5'
miRNA: 3'- guGACACUCUCGU-----------GGGCG---UCUCCUUG- -5'
miRNA: 3'- -GUGACACUCUCGUGGGCGUCUCCUUG- -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 | |||||||
| 15444 | 3' | -55.6 | NC_003930.1 | + | 5787 | 0.66 | 0.265705 |
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Target: 5'- aCGCcGUaAGAGUuaggGCCCGCAGGaacuuGGAACu -3' miRNA: 3'- -GUGaCAcUCUCG----UGGGCGUCU-----CCUUG- -5' |
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| 15444 | 3' | -55.6 | NC_003930.1 | + | 83 | 0.7 | 0.128044 |
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Target: 5'- aACUGU---AGCGCCgGCGGAGGggUu -3' miRNA: 3'- gUGACAcucUCGUGGgCGUCUCCuuG- -5' |
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| 15444 | 3' | -55.6 | NC_003930.1 | + | 950 | 0.74 | 0.057069 |
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Target: 5'- -uCUGUGAGGGUAucgucgguauuCCCGCgaaGGAGGAACu -3' miRNA: 3'- guGACACUCUCGU-----------GGGCG---UCUCCUUG- -5' |
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| 15444 | 3' | -55.6 | NC_003930.1 | + | 5256 | 1.08 | 0.000101 |
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Target: 5'- gCACUGUGAGAGCACCCGCAGAGGAACc -3' miRNA: 3'- -GUGACACUCUCGUGGGCGUCUCCUUG- -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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