miRNA: 3'- auaUCUAUCGCa----CCCa---CACa--CUGGAa -5'
miRNA: 3'- auauCuaUCgCACCCACACaCUGGaa -5'
miRNA: 3'- -AUAUCUAUCGCACCCACACACUGGAA- -5'
miRNA: 3'- auaUCUa--UCGCa----CCCa----CACACUGGAa -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 |
| Predicted miRNA align pattern | |||||||
| 29112 | 3' | -51.5 | NC_006146.1 | + | 112504 | 0.66 | 0.979806 |
|
Target: 5'- --gAGAUAGCGguccaGGGgccgGUGgagGGCCUg -3' miRNA: 3'- auaUCUAUCGCa----CCCa---CACa--CUGGAa -5' |
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| 29112 | 3' | -51.5 | NC_006146.1 | + | 100715 | 0.67 | 0.972003 |
|
Target: 5'- ---uGcgGGgGUGGGUGUGgGACCg- -3' miRNA: 3'- auauCuaUCgCACCCACACaCUGGaa -5' |
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| 29112 | 3' | -51.5 | NC_006146.1 | + | 134007 | 1.05 | 0.012819 |
|
Target: 5'- uUAUAGAUAGCGUGGGUGUGUGACCUUg -3' miRNA: 3'- -AUAUCUAUCGCACCCACACACUGGAA- -5' |
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| 29112 | 3' | -51.5 | NC_006146.1 | + | 166658 | 0.68 | 0.94584 |
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Target: 5'- --cAGAgcgAGCGggaagGGGgagcgGUGUGGCCUg -3' miRNA: 3'- auaUCUa--UCGCa----CCCa----CACACUGGAa -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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