miRNA: 3'- agaaCAUUCAGgCUAUGAUuAUUGGg -5'
miRNA: 3'- aGAACAuuCAGGCuaUgAUUAUugGG- -5'
miRNA: 3'- aGAACAUUCAGGcUAUGAuuAUUGGg -5'
miRNA: 3'- agaACAUU--CAGGcUAUGAUUaUUGGG- -5'
miRNA: 3'- -AGAACAUUCAGGCUAUGAUUAUUGGG- -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 | |||||||
| 32399 | 3' | -42.1 | NC_007055.1 | + | 41422 | 0.66 | 0.999964 |
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Target: 5'- ---aGUAAGUCaGAUACUGcUAAUCg -3' miRNA: 3'- agaaCAUUCAGgCUAUGAUuAUUGGg -5' |
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| 32399 | 3' | -42.1 | NC_007055.1 | + | 6902 | 0.66 | 0.99993 |
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Target: 5'- gCUUGUu-GUCCGuaGgUAGUAugCCa -3' miRNA: 3'- aGAACAuuCAGGCuaUgAUUAUugGG- -5' |
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| 32399 | 3' | -42.1 | NC_007055.1 | + | 4219 | 0.67 | 0.999825 |
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Target: 5'- gCUUGUAAGUCC-AUAUU--UAACUa -3' miRNA: 3'- aGAACAUUCAGGcUAUGAuuAUUGGg -5' |
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| 32399 | 3' | -42.1 | NC_007055.1 | + | 27170 | 0.7 | 0.996349 |
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Target: 5'- --aUGUAAccGUCC-AUACUAAcAGCCCa -3' miRNA: 3'- agaACAUU--CAGGcUAUGAUUaUUGGG- -5' |
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| 32399 | 3' | -42.1 | NC_007055.1 | + | 7487 | 1.15 | 0.00967 |
|
Target: 5'- uUCUUGUAAGUCCGAUACUAAUAACCCc -3' miRNA: 3'- -AGAACAUUCAGGCUAUGAUUAUUGGG- -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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