miRNA: 3'- -UCUUGGC---AC--UCGUCAGCGCAgGGAGU- -5'
miRNA: 3'- uCUUGGCAC----UCGUCA---GCGCAGGgAGU- -5'
miRNA: 3'- -UCUUGGCAC-UCGUcagCGCAGGGAGU- -5'
miRNA: 3'- -UCUUGGCACUCGUCAGCGCAGGGAGU- -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 | |||||||
| 15886 | 3' | -56.3 | NC_004065.1 | + | 8294 | 0.71 | 0.732051 |
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Target: 5'- cGGGGCCGcggUGuuAGCGGUCGUGUaCCUCAg -3' miRNA: 3'- -UCUUGGC---AC--UCGUCAGCGCAgGGAGU- -5' |
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| 15886 | 3' | -56.3 | NC_004065.1 | + | 1240 | 0.73 | 0.66376 |
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Target: 5'- uGAGCUGUGcuccGGCGGUuccCGCGUCCgUCAu -3' miRNA: 3'- uCUUGGCAC----UCGUCA---GCGCAGGgAGU- -5' |
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| 15886 | 3' | -56.3 | NC_004065.1 | + | 573 | 0.75 | 0.535593 |
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Target: 5'- gAGAGCCGUGaAGCGa--GCGUUCCUCGa -3' miRNA: 3'- -UCUUGGCAC-UCGUcagCGCAGGGAGU- -5' |
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| 15886 | 3' | -56.3 | NC_004065.1 | + | 44164 | 1.08 | 0.004881 |
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Target: 5'- cAGAACCGUGAGCAGUCGCGUCCCUCAc -3' miRNA: 3'- -UCUUGGCACUCGUCAGCGCAGGGAGU- -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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