miRNA: 3'- uuaUGGCGu---UUGUUUUCGUUGCgaau -5'
miRNA: 3'- uuaUGGC-GUUUG-UUUUCGUUGCGAAU- -5'
miRNA: 3'- uuaUGGCGUUUGuUuuCGUUGCGAAU- -5'
miRNA: 3'- -UUAUGGCGUUUGUuUUCGuUGCGAAU- -5'
miRNA: 3'- -UUAUGGCGUUUGUUUUCGUUGCGAau -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 | |||||||
| 823 | 3' | -44.6 | NC_000872.1 | + | 12977 | 0.69 | 0.944307 |
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Target: 5'- --cACCGUuuauGACGAAAGCAACGa--- -3' miRNA: 3'- uuaUGGCGu---UUGUUUUCGUUGCgaau -5' |
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| 823 | 3' | -44.6 | NC_000872.1 | + | 29452 | 0.71 | 0.880599 |
|
Target: 5'- --aAUUGaCAAACuAAAAGCAGCGCUUGc -3' miRNA: 3'- uuaUGGC-GUUUG-UUUUCGUUGCGAAU- -5' |
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| 823 | 3' | -44.6 | NC_000872.1 | + | 14110 | 0.72 | 0.862657 |
|
Target: 5'- --cAUCGCAAACcAuuGUAACGCUUAa -3' miRNA: 3'- uuaUGGCGUUUGuUuuCGUUGCGAAU- -5' |
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| 823 | 3' | -44.6 | NC_000872.1 | + | 9063 | 0.73 | 0.779452 |
|
Target: 5'- cAGUAUUGCGAGCAcGAGCcAUGCUUGu -3' miRNA: 3'- -UUAUGGCGUUUGUuUUCGuUGCGAAU- -5' |
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| 823 | 3' | -44.6 | NC_000872.1 | + | 8958 | 1.02 | 0.021147 |
|
Target: 5'- gAAUACCGCAAACAAAAGCAACGCUa- -3' miRNA: 3'- -UUAUGGCGUUUGUUUUCGUUGCGAau -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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