miRNA: 3'- acUUCCUUAU----CGGCCUcUCAC-AAGGA- -5'
miRNA: 3'- -ACUUCCuUAUCGGc--------CUCUCACAAGGa -5'
miRNA: 3'- -ACUUCCuUA----UCGGCCUCuCACaaGGa -5'
miRNA: 3'- aCuuCCUUaUCGGCCUC-UCACaaGGa -5'
miRNA: 3'- -ACUUCCUUAUCGGCCUCUCACAAGGA- -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 | |||||||
| 20422 | 5' | -51.2 | NC_004688.1 | + | 62020 | 0.66 | 0.980314 |
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Target: 5'- -aAGGGGAUGccguGCCGGA-AGUGcUUCCUg -3' miRNA: 3'- acUUCCUUAU----CGGCCUcUCAC-AAGGA- -5' |
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| 20422 | 5' | -51.2 | NC_004688.1 | + | 8619 | 0.67 | 0.954991 |
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Target: 5'- gUGGAGGcGUAGCCcucaaggacGAGAGUGUUUUc -3' miRNA: 3'- -ACUUCCuUAUCGGc--------CUCUCACAAGGa -5' |
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| 20422 | 5' | -51.2 | NC_004688.1 | + | 77786 | 0.68 | 0.936403 |
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Target: 5'- gUGGAGGcAUgaccGGUCGGAGuGUGggCCg -3' miRNA: 3'- -ACUUCCuUA----UCGGCCUCuCACaaGGa -5' |
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| 20422 | 5' | -51.2 | NC_004688.1 | + | 54421 | 0.7 | 0.878977 |
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Target: 5'- cGggGGAA-GGCUGGAGuGGUGgcCCg -3' miRNA: 3'- aCuuCCUUaUCGGCCUC-UCACaaGGa -5' |
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| 20422 | 5' | -51.2 | NC_004688.1 | + | 13834 | 1.08 | 0.006425 |
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Target: 5'- gUGAAGGAAUAGCCGGAGAGUGUUCCUc -3' miRNA: 3'- -ACUUCCUUAUCGGCCUCUCACAAGGA- -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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