miRNA: 3'- cuuCCCAAGGCuAUGUCGUAAuu -5'
miRNA: 3'- -CUUCCCAAGGC----------UAUGUCGUaauu -5'
miRNA: 3'- -CUUCCCAAGGC----------UAUGUCGUaauu -5'
miRNA: 3'- -CUUCCCAAGGCUAUGUCGUAAUU- -5'
miRNA: 3'- -CUUCCCAAGGCUAUGUCGUAAUU- -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 | |||||||
| 8630 | 5' | -43.4 | NC_002229.2 | + | 22807 | 0.7 | 0.999617 |
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Target: 5'- --cGGGUUCUG-UACAGCGUUu- -3' miRNA: 3'- cuuCCCAAGGCuAUGUCGUAAuu -5' |
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| 8630 | 5' | -43.4 | NC_002229.2 | + | 136541 | 0.7 | 0.99938 |
|
Target: 5'- uGAGGGGUUUCGucucuggcauGUGCAGCAa--- -3' miRNA: 3'- -CUUCCCAAGGC----------UAUGUCGUaauu -5' |
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| 8630 | 5' | -43.4 | NC_002229.2 | + | 2171 | 0.7 | 0.99938 |
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Target: 5'- uGAGGGGUUUCGucucuggcauGUGCAGCAa--- -3' miRNA: 3'- -CUUCCCAAGGC----------UAUGUCGUaauu -5' |
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| 8630 | 5' | -43.4 | NC_002229.2 | + | 5762 | 1.04 | 0.075415 |
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Target: 5'- cGAAGGGUUCCGAUACAGCAUUAAa -3' miRNA: 3'- -CUUCCCAAGGCUAUGUCGUAAUU- -5' |
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| 8630 | 5' | -43.4 | NC_002229.2 | + | 132950 | 1.04 | 0.075415 |
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Target: 5'- cGAAGGGUUCCGAUACAGCAUUAAa -3' miRNA: 3'- -CUUCCCAAGGCUAUGUCGUAAUU- -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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