miRNA: 3'- ucUAUGCuGUAuUAUCGCCA----CACAgG- -5'
miRNA: 3'- ucUAUGCUgUAUU--AUCGCCAC-ACAGG- -5'
miRNA: 3'- uCUAUgCUGUAUUAu---C-GCCACACAGG- -5'
miRNA: 3'- -UCUAUGCUGUAUUAUCGCCACACAGG- -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 | |||||||
| 1170 | 3' | -46.4 | NC_001132.2 | + | 81973 | 0.66 | 0.999983 |
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Target: 5'- -uAUACGuCAUuAUAGCGGUcgucGUGUgCg -3' miRNA: 3'- ucUAUGCuGUAuUAUCGCCA----CACAgG- -5' |
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| 1170 | 3' | -46.4 | NC_001132.2 | + | 55769 | 0.67 | 0.999923 |
|
Target: 5'- -uGUACGG-AUAAguUAGUGGUGuUGUCCc -3' miRNA: 3'- ucUAUGCUgUAUU--AUCGCCAC-ACAGG- -5' |
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| 1170 | 3' | -46.4 | NC_001132.2 | + | 155144 | 0.7 | 0.996764 |
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Target: 5'- cGGUA-GACGUGGUucguGuCGGUGUGUUCg -3' miRNA: 3'- uCUAUgCUGUAUUAu---C-GCCACACAGG- -5' |
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| 1170 | 3' | -46.4 | NC_001132.2 | + | 142439 | 1.15 | 0.012714 |
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Target: 5'- aAGAUACGACAUAAUAGCGGUGUGUCCg -3' miRNA: 3'- -UCUAUGCUGUAUUAUCGCCACACAGG- -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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