miRNA: 3'- -UAUG-CCA-AUGUugUGGAUGGug---CUCA- -5'
miRNA: 3'- uaUGCCaaUGUUGUGGa--UGGU-GCUCa -5'
miRNA: 3'- uaugCcAAUGUUGUGGAUGGUgCUCA- -5'
miRNA: 3'- -UAUGCCAAUGUUGUGGAUGGUGCUCA- -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 | |||||||
| 16631 | 5' | -49.5 | NC_004156.1 | + | 77907 | 0.67 | 0.997817 |
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Target: 5'- cAUACuGGUgUGCGugACCUACCuacuaGAGUg -3' miRNA: 3'- -UAUG-CCA-AUGUugUGGAUGGug---CUCA- -5' |
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| 16631 | 5' | -49.5 | NC_004156.1 | + | 174513 | 0.68 | 0.99577 |
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Target: 5'- -gACGG--ACGACACCgaaGCCAuCGAGg -3' miRNA: 3'- uaUGCCaaUGUUGUGGa--UGGU-GCUCa -5' |
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| 16631 | 5' | -49.5 | NC_004156.1 | + | 39666 | 0.71 | 0.976955 |
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Target: 5'- ---aGaUUACAACACCUACCAaGAGUg -3' miRNA: 3'- uaugCcAAUGUUGUGGAUGGUgCUCA- -5' |
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| 16631 | 5' | -49.5 | NC_004156.1 | + | 39880 | 1.07 | 0.023744 |
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Target: 5'- aAUACGGUUACAACACCUACCACGAGUg -3' miRNA: 3'- -UAUGCCAAUGUUGUGGAUGGUGCUCA- -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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