miRNA: 3'- -UUGG----ACGGCc-UGGCACC-AGCACAUCU- -5'
miRNA: 3'- uUGGa-CGGCCUGGC-ACC-AGCACaucu -5'
miRNA: 3'- uUGGACGGCCUGGcAC----------CAGCACAucu -5'
miRNA: 3'- uUGG----ACGGCCUGGCA-----CCAGCACa--UCU- -5'
miRNA: 3'- -UUGGACGGCCUGGCACCAGCACAUCU- -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 | |||||||
| 23319 | 3' | -57.3 | NC_005259.1 | + | 39578 | 0.66 | 0.665218 |
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Target: 5'- cGACCucgaUGCUGuuGCUGUGGaUCGUGUGGGu -3' miRNA: 3'- -UUGG----ACGGCc-UGGCACC-AGCACAUCU- -5' |
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| 23319 | 3' | -57.3 | NC_005259.1 | + | 20262 | 0.69 | 0.476418 |
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Target: 5'- cGCCgcGCCGGGCCGaUGGaUCGUGg--- -3' miRNA: 3'- uUGGa-CGGCCUGGC-ACC-AGCACaucu -5' |
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| 23319 | 3' | -57.3 | NC_005259.1 | + | 59684 | 0.69 | 0.466581 |
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Target: 5'- uGCCUGCCGGACC-UGcacacaccgaGUCGUGUc-- -3' miRNA: 3'- uUGGACGGCCUGGcAC----------CAGCACAucu -5' |
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| 23319 | 3' | -57.3 | NC_005259.1 | + | 49548 | 0.7 | 0.437721 |
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Target: 5'- cACCucagUGCCGGGCUGUucgucGGUCGUGgccAGAc -3' miRNA: 3'- uUGG----ACGGCCUGGCA-----CCAGCACa--UCU- -5' |
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| 23319 | 3' | -57.3 | NC_005259.1 | + | 12184 | 1.07 | 0.001182 |
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Target: 5'- gAACCUGCCGGACCGUGGUCGUGUAGAg -3' miRNA: 3'- -UUGGACGGCCUGGCACCAGCACAUCU- -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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