miRNA: 3'- cguCCGU-CCGGGucaaaUAGCGGGac -5'
miRNA: 3'- -CGUC-----CGUCCGGGUCAAAUA----------GCgGGAc -5'
miRNA: 3'- -CGuCCG--------UCCGGGUCAAAUAGcGGGac -5'
miRNA: 3'- cguCCGuCCGGGUCAaauAGCGGGAC- -5'
miRNA: 3'- -CGUCCGUCCGGGUCAAAUAGCGGGAC- -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 | |||||||
| 11356 | 3' | -56.4 | NC_003084.1 | + | 5307 | 0.66 | 0.819562 |
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Target: 5'- --cGGCAcGGCCCcg---GUCGCCCa- -3' miRNA: 3'- cguCCGU-CCGGGucaaaUAGCGGGac -5' |
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| 11356 | 3' | -56.4 | NC_003084.1 | + | 76679 | 0.68 | 0.671721 |
|
Target: 5'- aGCGGgaagaGCGGGCCCGGUUUAUagaagcuggaCGgCCUa -3' miRNA: 3'- -CGUC-----CGUCCGGGUCAAAUA----------GCgGGAc -5' |
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| 11356 | 3' | -56.4 | NC_003084.1 | + | 91917 | 0.7 | 0.577082 |
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Target: 5'- aGC-GGUccaguucgAGGCCCAGUUUAUC-CCCg- -3' miRNA: 3'- -CGuCCG--------UCCGGGUCAAAUAGcGGGac -5' |
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| 11356 | 3' | -56.4 | NC_003084.1 | + | 81026 | 0.7 | 0.546 |
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Target: 5'- --cGGC-GGCCCAGU---UCGCCUUGc -3' miRNA: 3'- cguCCGuCCGGGUCAaauAGCGGGAC- -5' |
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| 11356 | 3' | -56.4 | NC_003084.1 | + | 103790 | 1.09 | 0.001439 |
|
Target: 5'- aGCAGGCAGGCCCAGUUUAUCGCCCUGc -3' miRNA: 3'- -CGUCCGUCCGGGUCAAAUAGCGGGAC- -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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