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miRNA: 3'- caGCGCGUAGUC-CGuuUCGGCUaaCG- -5'
miRNA: 3'- cagCGCGuaGUCCGUUUCGGcuaACG- -5'
miRNA: 3'- -CAGCGCGU--AGUCCGuu--UCGGCUa----ACG- -5'
miRNA: 3'- -CAGCGCGUaGUCCGUUu-------CGGCUAa---CG- -5'
miRNA: 3'- -CAGCGCGUAGUCCGUUUCGGCUAACG- -5'
Results 61 - 65 of 65 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio#
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P value |
| Predicted miRNA align pattern | |||||||
| 28014 | 5' | -52.5 | NC_005887.1 | + | 34377 | 0.72 | 0.413845 |
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Target: 5'- -cCGCGUAUCAGaGUgcGGCCGGgcGCg -3' miRNA: 3'- caGCGCGUAGUC-CGuuUCGGCUaaCG- -5' |
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| 28014 | 5' | -52.5 | NC_005887.1 | + | 3023 | 0.74 | 0.314927 |
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Target: 5'- --aGCGCcgCGGGCAAAGCCa--UGCu -3' miRNA: 3'- cagCGCGuaGUCCGUUUCGGcuaACG- -5' |
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| 28014 | 5' | -52.5 | NC_005887.1 | + | 29789 | 0.74 | 0.340036 |
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Target: 5'- cGUCGCGCAgcUCGGGCcaguAGCUGGaagucUGCg -3' miRNA: 3'- -CAGCGCGU--AGUCCGuu--UCGGCUa----ACG- -5' |
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| 28014 | 5' | -52.5 | NC_005887.1 | + | 15618 | 0.77 | 0.222382 |
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Target: 5'- cGUCGCGCAgCAGGCGGccgggcucGCCGAUcaggGCg -3' miRNA: 3'- -CAGCGCGUaGUCCGUUu-------CGGCUAa---CG- -5' |
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| 28014 | 5' | -52.5 | NC_005887.1 | + | 32739 | 1.13 | 0.000668 |
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Target: 5'- gGUCGCGCAUCAGGCAAAGCCGAUUGCg -3' miRNA: 3'- -CAGCGCGUAGUCCGUUUCGGCUAACG- -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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