miRNA: 3'- uGACUUCUAGACCUcUCUGAu-CG-GUC- -5'
miRNA: 3'- uGACUUCUAGa-------------CCUCUC-UGaUCGGUC- -5'
miRNA: 3'- ugaCUUCUAG-ACCUCuc-----UGAUCGGUC- -5'
miRNA: 3'- uGACUUCU--AGACCUCUCuGa-UCGGUC- -5'
miRNA: 3'- -UGACUUCUAGACCUCUCUGAUCGGUC- -5'
Results 1 - 5 of 5 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 | |||||||
| 19710 | 5' | -51.5 | NC_004686.1 | + | 20550 | 0.66 | 0.880245 |
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Target: 5'- cUUGAGGAUCUGGAuGGGCUcuGCaUAGa -3' miRNA: 3'- uGACUUCUAGACCUcUCUGAu-CG-GUC- -5' |
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| 19710 | 5' | -51.5 | NC_004686.1 | + | 24744 | 0.66 | 0.858832 |
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Target: 5'- uCUGAGGAUCcgcgugggguguacGGGGAGuACcAGCCAGc -3' miRNA: 3'- uGACUUCUAGa-------------CCUCUC-UGaUCGGUC- -5' |
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| 19710 | 5' | -51.5 | NC_004686.1 | + | 3825 | 0.67 | 0.818761 |
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Target: 5'- --cGAGGAUCuUGGGGccuacgcGCUGGCCGGg -3' miRNA: 3'- ugaCUUCUAG-ACCUCuc-----UGAUCGGUC- -5' |
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| 19710 | 5' | -51.5 | NC_004686.1 | + | 5 | 0.69 | 0.703004 |
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Target: 5'- cCUGAGGGgcUCUGGGGGGuCggGGUCGGg -3' miRNA: 3'- uGACUUCU--AGACCUCUCuGa-UCGGUC- -5' |
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| 19710 | 5' | -51.5 | NC_004686.1 | + | 46564 | 1.08 | 0.002523 |
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Target: 5'- cACUGAAGAUCUGGAGAGACUAGCCAGc -3' miRNA: 3'- -UGACUUCUAGACCUCUCUGAUCGGUC- -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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