miRNA: 3'- -CUCGGC-CGu----CUGGUCGuCCGGCUUga -5'
miRNA: 3'- cUCGGCCG---------------UCUGG---UCGUCCGGcUUGA- -5'
miRNA: 3'- cuCGGcCGuCugGUCG----UCCGGCUUGA- -5'
miRNA: 3'- cUCGGCCGUCUGGUCG----UCCGGcUUGA- -5'
miRNA: 3'- cuCGGCCGUCuGGUCGUCCGgCuuGa -5'
Results 21 - 25 of 25 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 | |||||||
| 30768 | 3' | -60.3 | NC_006552.1 | + | 53803 | 0.7 | 0.257629 |
|
Target: 5'- cGGGUCGuGCucuuuGGCCGGCuGGCCGAAa- -3' miRNA: 3'- -CUCGGC-CGu----CUGGUCGuCCGGCUUga -5' |
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| 30768 | 3' | -60.3 | NC_006552.1 | + | 60356 | 0.7 | 0.280194 |
|
Target: 5'- uGGCCGGCgaagggccagucgcuAGACCacaAGCGGGCC-AACUc -3' miRNA: 3'- cUCGGCCG---------------UCUGG---UCGUCCGGcUUGA- -5' |
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| 30768 | 3' | -60.3 | NC_006552.1 | + | 61981 | 0.68 | 0.368867 |
|
Target: 5'- -cGCC-GCuGugCAGCagcgAGGCCGAACUc -3' miRNA: 3'- cuCGGcCGuCugGUCG----UCCGGCUUGA- -5' |
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| 30768 | 3' | -60.3 | NC_006552.1 | + | 62102 | 0.79 | 0.062056 |
|
Target: 5'- uGGCCGGCAGAUCGGCgucgAGGCCaAGCUg -3' miRNA: 3'- cUCGGCCGUCUGGUCG----UCCGGcUUGA- -5' |
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| 30768 | 3' | -60.3 | NC_006552.1 | + | 64493 | 0.71 | 0.233009 |
|
Target: 5'- -cGCUGGCGGcCUGGCAGGCgGggUg -3' miRNA: 3'- cuCGGCCGUCuGGUCGUCCGgCuuGa -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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