miRNA: 3'- cCUAUGAGauu--UCGG--CUCUaCAGCUC- -5'
miRNA: 3'- -CCUAU--GAGAUuuCGGC------UCUACAGCUc -5'
miRNA: 3'- cCUAUGAGaUUUcGGCUCUACaGCUC- -5'
miRNA: 3'- -CCUAUGAGAUUUCGGCUCUACAGCUC- -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 | |||||||
| 2642 | 5' | -47.5 | NC_001491.2 | + | 52105 | 0.67 | 0.999569 |
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Target: 5'- uGGUGCUCgaacuAGCCuuGAGG-GUCGGGa -3' miRNA: 3'- cCUAUGAGauu--UCGG--CUCUaCAGCUC- -5' |
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| 2642 | 5' | -47.5 | NC_001491.2 | + | 63076 | 0.7 | 0.990951 |
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Target: 5'- gGGAUGuuCUCUGcuGCCGggucagGGAUGUCGGa -3' miRNA: 3'- -CCUAU--GAGAUuuCGGC------UCUACAGCUc -5' |
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| 2642 | 5' | -47.5 | NC_001491.2 | + | 5105 | 0.71 | 0.982801 |
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Target: 5'- aGAUGCUCcGGAcCCGGGGUGcCGGGg -3' miRNA: 3'- cCUAUGAGaUUUcGGCUCUACaGCUC- -5' |
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| 2642 | 5' | -47.5 | NC_001491.2 | + | 118993 | 1.12 | 0.01399 |
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Target: 5'- uGGAUACUCUAAAGCCGAGAUGUCGAGu -3' miRNA: 3'- -CCUAUGAGAUUUCGGCUCUACAGCUC- -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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