miRNA: 3'- aGGaUCUGGa---ACUcGGGCUAGCUGGC- -5'
miRNA: 3'- -AGGAuCUGGAAc--UCGgGCUAGCUGGC- -5'
miRNA: 3'- -AGGAuCUGGA---ACuCGGGCUA-GCUGGC- -5'
miRNA: 3'- -AGGAUCUGGAACUCGGGCUAGCUGGC- -5'
Results 1 - 4 of 4 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 | |||||||
| 24954 | 3' | -55.3 | NC_005284.1 | + | 5140 | 0.66 | 0.742822 |
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Target: 5'- aCCgGGAUCguccUGAaUCCGAUCGACUGg -3' miRNA: 3'- aGGaUCUGGa---ACUcGGGCUAGCUGGC- -5' |
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| 24954 | 3' | -55.3 | NC_005284.1 | + | 47937 | 0.66 | 0.73238 |
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Target: 5'- aUCCU-GAUCUUucuGGCgCGGUUGGCCGa -3' miRNA: 3'- -AGGAuCUGGAAc--UCGgGCUAGCUGGC- -5' |
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| 24954 | 3' | -55.3 | NC_005284.1 | + | 46814 | 0.67 | 0.635266 |
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Target: 5'- uUUCUcGACCUcuuUGcGCCCGGUcCGAUCGa -3' miRNA: 3'- -AGGAuCUGGA---ACuCGGGCUA-GCUGGC- -5' |
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| 24954 | 3' | -55.3 | NC_005284.1 | + | 39758 | 1.09 | 0.001143 |
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Target: 5'- cUCCUAGACCUUGAGCCCGAUCGACCGu -3' miRNA: 3'- -AGGAUCUGGAACUCGGGCUAGCUGGC- -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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