miRNA: 3'- uaacUUAACUAUUuUUUCGGGCauug -5'
miRNA: 3'- -UAACuUAACuAUUUuUUCGGGCAUUG- -5'
miRNA: 3'- uaACuUAACUAUUUuUUCGGGCAUUg -5'
miRNA: 3'- -UAACUUAACUAUUUUUUCGGGCAUUG- -5'
Results 1 - 4 of 4 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 | |||||||
| 7540 | 3' | -39.1 | NC_001956.1 | + | 7035 | 0.66 | 0.988824 |
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Target: 5'- ---aAAUUGGUAAcAAAGCCCGc--- -3' miRNA: 3'- uaacUUAACUAUUuUUUCGGGCauug -5' |
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| 7540 | 3' | -39.1 | NC_001956.1 | + | 8300 | 0.77 | 0.545084 |
|
Target: 5'- aGUUG-GUUG-UGAAuAAGCCCGUAGCu -3' miRNA: 3'- -UAACuUAACuAUUUuUUCGGGCAUUG- -5' |
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| 7540 | 3' | -39.1 | NC_001956.1 | + | 5572 | 0.79 | 0.449565 |
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Target: 5'- -aUG-GUUGAUAAAcAAGCCCGUGAg -3' miRNA: 3'- uaACuUAACUAUUUuUUCGGGCAUUg -5' |
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| 7540 | 3' | -39.1 | NC_001956.1 | + | 8369 | 1.1 | 0.004764 |
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Target: 5'- uAUUGAAUUGAUAAAAAAGCCCGUAACu -3' miRNA: 3'- -UAACUUAACUAUUUUUUCGGGCAUUG- -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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