miRNA: 3'- guuUAugGCCU---------------CAAAUAGUAGCUaac -5'
miRNA: 3'- gUUUAUGGCCuCAA--AUAGUAgCUAac -5'
miRNA: 3'- gUUUAUGG--CCUCAAAUA---------GUAGCUAAc -5'
miRNA: 3'- guuuAUGGCCUCAaaUAGUAGCUaac -5'
miRNA: 3'- -GUUUAUGGCCUCAAAUAGUAGCUAAC- -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 | |||||||
| 17772 | 5' | -41.7 | NC_004629.1 | + | 187933 | 0.66 | 1 |
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Target: 5'- --uAUugCGGAauauccugaaauuuuGUUUAUCAUCGAc-- -3' miRNA: 3'- guuUAugGCCU---------------CAAAUAGUAGCUaac -5' |
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| 17772 | 5' | -41.7 | NC_004629.1 | + | 278632 | 0.66 | 1 |
|
Target: 5'- uGAGUGCUGGuGUUggUAUCAUgGGUc- -3' miRNA: 3'- gUUUAUGGCCuCAA--AUAGUAgCUAac -5' |
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| 17772 | 5' | -41.7 | NC_004629.1 | + | 10101 | 0.67 | 1 |
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Target: 5'- uGAAUACCuuGGAGUUUAUuguagaauaCAUUGAUUc -3' miRNA: 3'- gUUUAUGG--CCUCAAAUA---------GUAGCUAAc -5' |
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| 17772 | 5' | -41.7 | NC_004629.1 | + | 260574 | 0.74 | 0.999978 |
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Target: 5'- ---cUGCCGGGGU--AUCAUCGAa-- -3' miRNA: 3'- guuuAUGGCCUCAaaUAGUAGCUaac -5' |
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| 17772 | 5' | -41.7 | NC_004629.1 | + | 179810 | 1.1 | 0.124987 |
|
Target: 5'- cCAAAUACCGGAGUUUAUCAUCGAUUGc -3' miRNA: 3'- -GUUUAUGGCCUCAAAUAGUAGCUAAC- -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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