miRNA: 3'- -CUUguCGaGUCGGGUuaGGCGGUCAc -5'
miRNA: 3'- cUUGUCGaGUCG-GGUUAGGCGGucac -5'
miRNA: 3'- cuUGUCGAguCGGgUUAggCGGUCac -5'
miRNA: 3'- cUUGuCGAGUCG-GGUUA----GGC-GGUCAc -5'
miRNA: 3'- -CUUGUCGAGUCGGGUUAGGCGGUCAC- -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 | |||||||
| 22499 | 5' | -55.4 | NC_005069.1 | + | 32692 | 0.66 | 0.616358 |
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Target: 5'- uGAAguGC-CAGCUCA--UCGCCAGUa -3' miRNA: 3'- -CUUguCGaGUCGGGUuaGGCGGUCAc -5' |
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| 22499 | 5' | -55.4 | NC_005069.1 | + | 31168 | 0.66 | 0.616358 |
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Target: 5'- uAAUAGC-CAGCaCCGGUCCGCUg--- -3' miRNA: 3'- cUUGUCGaGUCG-GGUUAGGCGGucac -5' |
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| 22499 | 5' | -55.4 | NC_005069.1 | + | 20526 | 0.66 | 0.616358 |
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Target: 5'- -cGCAGCUguGCCgAAUgaGCCAGc- -3' miRNA: 3'- cuUGUCGAguCGGgUUAggCGGUCac -5' |
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| 22499 | 5' | -55.4 | NC_005069.1 | + | 17010 | 0.69 | 0.423481 |
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Target: 5'- cAACuGCUCAGCaCCAAUuucaCCGuCCAGUa -3' miRNA: 3'- cUUGuCGAGUCG-GGUUA----GGC-GGUCAc -5' |
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| 22499 | 5' | -55.4 | NC_005069.1 | + | 19185 | 1.09 | 0.000634 |
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Target: 5'- cGAACAGCUCAGCCCAAUCCGCCAGUGa -3' miRNA: 3'- -CUUGUCGAGUCGGGUUAGGCGGUCAC- -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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