miRNA: 3'- uCUCCGA-UGGaCAGCGUa---------GCGGCCUc -5'
miRNA: 3'- -UCUCCGAUGGAca-GCGUaGCGGCcUC- -5'
miRNA: 3'- -UCUCCGAUGGACAGCGUAGCGGCCUC- -5'
Results 1 - 3 of 3 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 | |||||||
| 21124 | 3' | -57.8 | NC_004775.1 | + | 11745 | 0.66 | 0.484545 |
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Target: 5'- uGAGGUUcGCC-GUCGCAaucggcaggcCGCCGGAa -3' miRNA: 3'- uCUCCGA-UGGaCAGCGUa---------GCGGCCUc -5' |
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| 21124 | 3' | -57.8 | NC_004775.1 | + | 13557 | 0.68 | 0.369404 |
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Target: 5'- cGGAGGUUACCUucaCGCA-CGCCGuAGg -3' miRNA: 3'- -UCUCCGAUGGAca-GCGUaGCGGCcUC- -5' |
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| 21124 | 3' | -57.8 | NC_004775.1 | + | 14023 | 1.07 | 0.000454 |
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Target: 5'- cAGAGGCUACCUGUCGCAUCGCCGGAGc -3' miRNA: 3'- -UCUCCGAUGGACAGCGUAGCGGCCUC- -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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