miRNA: 3'- -CC-GGGGUacaaUUUACACCa-CCUCCU- -5'
miRNA: 3'- -CCGG-GGUACaau-----UUACACCa---CCUCCu -5'
miRNA: 3'- -CCGGG-GUACaAUUUACACCA----------CC-UCCU- -5'
miRNA: 3'- -CCGGGGUaCAAUUUACACCACCUCCU- -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 | |||||||
| 6208 | 3' | -51.1 | NC_001844.1 | + | 142393 | 0.66 | 0.98639 |
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Target: 5'- cGGaCCCUAgc--AGAUGUGGccGGGGGAu -3' miRNA: 3'- -CC-GGGGUacaaUUUACACCa-CCUCCU- -5' |
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| 6208 | 3' | -51.1 | NC_001844.1 | + | 142149 | 0.7 | 0.916406 |
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Target: 5'- cGGCCgCCAUGgcguccccGAUGUGGggcaGGGGGu -3' miRNA: 3'- -CCGG-GGUACaau-----UUACACCa---CCUCCu -5' |
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| 6208 | 3' | -51.1 | NC_001844.1 | + | 144157 | 0.72 | 0.84418 |
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Target: 5'- uGGCCCgCAUG-UAGAUGUGGUacuggcugauGGcGGGAc -3' miRNA: 3'- -CCGGG-GUACaAUUUACACCA----------CC-UCCU- -5' |
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| 6208 | 3' | -51.1 | NC_001844.1 | + | 58779 | 1.03 | 0.020299 |
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Target: 5'- cGGCCCCA-GUUAAAUGUGGUGGAGGAu -3' miRNA: 3'- -CCGGGGUaCAAUUUACACCACCUCCU- -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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