miRNA: 3'- cUCCACCUGCUCC---------UCAa---GUUCGGGcu -5'
miRNA: 3'- -CUCCACCUGCUCCUCaaGU---------------UCGGGCu -5'
miRNA: 3'- -CUCCACCUGCUCCUCAAGUUCGGGCU- -5'
Results 41 - 43 of 43 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 | |||||||
| 13959 | 5' | -55.8 | NC_003521.1 | + | 44280 | 0.74 | 0.626503 |
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Target: 5'- uAGGUGGGCGAGGgcaggccguGGUugagCAGGCCCa- -3' miRNA: 3'- cUCCACCUGCUCC---------UCAa---GUUCGGGcu -5' |
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| 13959 | 5' | -55.8 | NC_003521.1 | + | 216252 | 0.76 | 0.494265 |
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Target: 5'- gGAGGUGGACGAGGAGgcCGccgaguaguagcgccAGCUCGu -3' miRNA: 3'- -CUCCACCUGCUCCUCaaGU---------------UCGGGCu -5' |
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| 13959 | 5' | -55.8 | NC_003521.1 | + | 27597 | 1.09 | 0.004768 |
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Target: 5'- cGAGGUGGACGAGGAGUUCAAGCCCGAg -3' miRNA: 3'- -CUCCACCUGCUCCUCAAGUUCGGGCU- -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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