miRNA: 3'- aGGAGGGCagaUGCUCCUGGGG------------CAGG- -5'
miRNA: 3'- -AGG---AGGGcaGAUGc-UCCUGGGGCAGG- -5'
miRNA: 3'- aGGAGGG----CAGaugCUCCUGGGGCAgG- -5'
Results 41 - 43 of 43 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 27217 | 3' | -58.8 | NC_005832.1 | + | 44191 | 0.7 | 0.521057 |
|
Target: 5'- cCCUCCUG---ACGAGGGCCCCcgcgcacaacggGUCUa -3' miRNA: 3'- aGGAGGGCagaUGCUCCUGGGG------------CAGG- -5' |
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| 27217 | 3' | -58.8 | NC_005832.1 | + | 5139 | 0.69 | 0.5603 |
|
Target: 5'- aUCCcuuUCCC--CUGCccAGGACCCUGUCCa -3' miRNA: 3'- -AGG---AGGGcaGAUGc-UCCUGGGGCAGG- -5' |
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| 27217 | 3' | -58.8 | NC_005832.1 | + | 75965 | 0.66 | 0.749584 |
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Target: 5'- gCCUCCUcagaGUCgaaGGGGAUCCUGUgCu -3' miRNA: 3'- aGGAGGG----CAGaugCUCCUGGGGCAgG- -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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