miRNA: 3'- acauaACUUUCUGGGGaaguauUCCG- -5'
miRNA: 3'- aCAUA-------ACUUUCUGGGGaaguauUCCG- -5'
miRNA: 3'- acauaACUUUCUGGGGAAGUAUUCCG- -5'
miRNA: 3'- -ACAUAACUUUCUGGGGAAGUAUUCCG- -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 | |||||||
| 3214 | 5' | -44.8 | NC_001506.1 | + | 146 | 0.7 | 0.266323 |
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Target: 5'- ----aUGAAAGACCCCcaggcuGGGCa -3' miRNA: 3'- acauaACUUUCUGGGGaaguauUCCG- -5' |
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| 3214 | 5' | -44.8 | NC_001506.1 | + | 3370 | 0.72 | 0.193654 |
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Target: 5'- cGUAUuacauacUGAAAGACCCCcaggcuGGGCa -3' miRNA: 3'- aCAUA-------ACUUUCUGGGGaaguauUCCG- -5' |
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| 3214 | 5' | -44.8 | NC_001506.1 | + | 2782 | 1 | 0.001712 |
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Target: 5'- ----aUGAAAGACCCCUUCAUAAGGCu -3' miRNA: 3'- acauaACUUUCUGGGGAAGUAUUCCG- -5' |
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| 3214 | 5' | -44.8 | NC_001506.1 | + | 3370 | 1.14 | 0.000122 |
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Target: 5'- cUGUAUUGAAAGACCCCUUCAUAAGGCu -3' miRNA: 3'- -ACAUAACUUUCUGGGGAAGUAUUCCG- -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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