miRNA: 3'- -CUGGUGaGCGaGCCCC-----UCGUGCAGUU- -5'
miRNA: 3'- -CUgGUGAGCG---AGCCCCUCGUGCaGUu -5'
miRNA: 3'- cUGGUGaGCGAGCCCCUCG------------UGCAGUu -5'
miRNA: 3'- -CUGGUGAGCGAGCCCCUCGUGCAGUU- -5'
Results 21 - 24 of 24 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 | |||||||
| 29396 | 3' | -58.8 | NC_006151.1 | + | 69708 | 0.74 | 0.303672 |
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Target: 5'- uGGCCGC-CGC-CGGGGgcagcAGCGCGUCGAu -3' miRNA: 3'- -CUGGUGaGCGaGCCCC-----UCGUGCAGUU- -5' |
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| 29396 | 3' | -58.8 | NC_006151.1 | + | 136651 | 0.75 | 0.276732 |
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Target: 5'- gGGgCGCUCGCcccUCGGGGAGCGCG-CGg -3' miRNA: 3'- -CUgGUGAGCG---AGCCCCUCGUGCaGUu -5' |
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| 29396 | 3' | -58.8 | NC_006151.1 | + | 130324 | 0.79 | 0.153504 |
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Target: 5'- cGCCGCgCGCUCGGGGAGCucgcgcgccgcgGCGUCGu -3' miRNA: 3'- cUGGUGaGCGAGCCCCUCG------------UGCAGUu -5' |
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| 29396 | 3' | -58.8 | NC_006151.1 | + | 121109 | 1.06 | 0.002093 |
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Target: 5'- cGACCACUCGCUCGGGGAGCACGUCAAg -3' miRNA: 3'- -CUGGUGAGCGAGCCCCUCGUGCAGUU- -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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