miRNA: 3'- cGCGCAUA----UUACCCGAUAAuACaCGA- -5'
miRNA: 3'- -CG-CGCaUAUuACCCGau---AAUACACGA- -5'
miRNA: 3'- -CGCGCAUAUUACCCGAUAAUACACGA- -5'
miRNA: 3'- -CGCGCAUAUUACCCGAUAAUACACGA- -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 | |||||||
| 27375 | 5' | -46.2 | NC_005857.1 | + | 44621 | 0.68 | 0.975495 |
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Target: 5'- cCGCGUAUuggcGGUGGGCUGUU-UGaGUUa -3' miRNA: 3'- cGCGCAUA----UUACCCGAUAAuACaCGA- -5' |
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| 27375 | 5' | -46.2 | NC_005857.1 | + | 43268 | 0.68 | 0.969076 |
|
Target: 5'- aGCuGCGcAUGcUGGGUgagauUUGUGUGCUg -3' miRNA: 3'- -CG-CGCaUAUuACCCGau---AAUACACGA- -5' |
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| 27375 | 5' | -46.2 | NC_005857.1 | + | 29170 | 1.13 | 0.004385 |
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Target: 5'- cGCGCGUAUAAUGGGCUGUUGUGUGCUg -3' miRNA: 3'- -CGCGCAUAUUACCCGAUAAUACACGA- -5' |
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| 27375 | 5' | -46.2 | NC_005857.1 | + | 29114 | 1.13 | 0.004385 |
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Target: 5'- cGCGCGUAUAAUGGGCUAUUAUGUGCUg -3' miRNA: 3'- -CGCGCAUAUUACCCGAUAAUACACGA- -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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