miRNA: 3'- cAGCGCuCGUU-GCGCGAGCUGCauga -5'
miRNA: 3'- caGCGc-UCGUUGcGCGAGCUGCAugA- -5'
miRNA: 3'- cagCGCUC-GUUGCGCGAG---------------CUGCAUGa -5'
miRNA: 3'- -CAGCGCUCGUUGCGCGAGCUGc-AUGa -5'
miRNA: 3'- -CAGCGCUCGUUGCGCGAGCUGCAUGA- -5'
Results 21 - 25 of 25 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 | |||||||
| 18547 | 5' | -55.3 | NC_004682.1 | + | 10495 | 0.7 | 0.442135 |
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Target: 5'- uUCGCG-GUGAcCGCGCUCGACGc--- -3' miRNA: 3'- cAGCGCuCGUU-GCGCGAGCUGCauga -5' |
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| 18547 | 5' | -55.3 | NC_004682.1 | + | 40946 | 0.7 | 0.432412 |
|
Target: 5'- -cCGCuuGGCGGCuCGCUCGACGUugUg -3' miRNA: 3'- caGCGc-UCGUUGcGCGAGCUGCAugA- -5' |
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| 18547 | 5' | -55.3 | NC_004682.1 | + | 43642 | 0.72 | 0.337583 |
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Target: 5'- --gGCGAGcCAGCGUGCUCaccgccgggggucuuGACGUACg -3' miRNA: 3'- cagCGCUC-GUUGCGCGAG---------------CUGCAUGa -5' |
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| 18547 | 5' | -55.3 | NC_004682.1 | + | 36342 | 0.82 | 0.077168 |
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Target: 5'- cGUCGCGGGUGACGUGCUCGACccUGCg -3' miRNA: 3'- -CAGCGCUCGUUGCGCGAGCUGc-AUGa -5' |
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| 18547 | 5' | -55.3 | NC_004682.1 | + | 44959 | 1.07 | 0.001231 |
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Target: 5'- cGUCGCGAGCAACGCGCUCGACGUACUc -3' miRNA: 3'- -CAGCGCUCGUUGCGCGAGCUGCAUGA- -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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