miRNA: 3'- -CAAGA---AG-CCU--CUGCACucUCUCCA-CC- -5'
miRNA: 3'- -CAAGA---------------AGCCuCUGCaCUCuCUCCACC- -5'
miRNA: 3'- caagaAGCCUCUGCaCUCU----CU-CCACC- -5'
miRNA: 3'- caAGAAGCCuCuGcACUCUCU-CCACC- -5'
Results 21 - 24 of 24 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 15796 | 5' | -51.8 | NC_004065.1 | + | 171063 | 0.66 | 0.998129 |
|
Target: 5'- cGUUCUcguUCuGGAucGACGUGuuGGAGGUcGGc -3' miRNA: 3'- -CAAGA---AG-CCU--CUGCACucUCUCCA-CC- -5' |
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| 15796 | 5' | -51.8 | NC_004065.1 | + | 173299 | 0.7 | 0.971495 |
|
Target: 5'- gGUUCUucuucgaggugucggUCGGcGACGaGGGuGAGGUGGc -3' miRNA: 3'- -CAAGA---------------AGCCuCUGCaCUCuCUCCACC- -5' |
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| 15796 | 5' | -51.8 | NC_004065.1 | + | 198899 | 0.68 | 0.985996 |
|
Target: 5'- ----gUCGGAGACG-GAGAcgguGAcGGUGGu -3' miRNA: 3'- caagaAGCCUCUGCaCUCU----CU-CCACC- -5' |
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| 15796 | 5' | -51.8 | NC_004065.1 | + | 225891 | 0.67 | 0.993507 |
|
Target: 5'- -gUCUUCGG-GuC-UGAGGGAcGGUGGu -3' miRNA: 3'- caAGAAGCCuCuGcACUCUCU-CCACC- -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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