miRNA: 3'- gAugGUGUUGAAGCCAa----AGUCUUugu -5'
miRNA: 3'- gaugGUGUUGaaGCCAAAGU-CUUUGU- -5'
miRNA: 3'- gaUGGUGUU-GAAGCCaaaGUCuUUGU- -5'
miRNA: 3'- -GAUGGUGUUGAagCCAaAGUC-UUUGU- -5'
miRNA: 3'- -GAUGGUGUUGAAGCCAAAGUCUUUGU- -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 | |||||||
| 16969 | 5' | -44.5 | NC_004323.1 | + | 42738 | 0.68 | 0.999945 |
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Target: 5'- uUugUACAACUUCGGUacgugUUAGAGu-- -3' miRNA: 3'- gAugGUGUUGAAGCCAa----AGUCUUugu -5' |
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| 16969 | 5' | -44.5 | NC_004323.1 | + | 118422 | 0.69 | 0.999778 |
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Target: 5'- ---aCACGACgcCGGUUUCGuGAAACGg -3' miRNA: 3'- gaugGUGUUGaaGCCAAAGU-CUUUGU- -5' |
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| 16969 | 5' | -44.5 | NC_004323.1 | + | 129146 | 0.7 | 0.99927 |
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Target: 5'- -cGCCGCAAuCUUCGGag-CAGcAGCAa -3' miRNA: 3'- gaUGGUGUU-GAAGCCaaaGUCuUUGU- -5' |
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| 16969 | 5' | -44.5 | NC_004323.1 | + | 82308 | 0.7 | 0.99888 |
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Target: 5'- aCUGCCACGACUg-GGUgUUGGaAAGCAa -3' miRNA: 3'- -GAUGGUGUUGAagCCAaAGUC-UUUGU- -5' |
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| 16969 | 5' | -44.5 | NC_004323.1 | + | 15137 | 1.1 | 0.030035 |
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Target: 5'- uCUACCACAACUUCGGUUUCAGAAACAc -3' miRNA: 3'- -GAUGGUGUUGAAGCCAAAGUCUUUGU- -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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