miRNA: 3'- -GGUCAUGAAUGGCACCGCACUGGUGC- -5'
miRNA: 3'- gGUCAugAA-UGGCaCCGC-ACUGGUGc -5'
miRNA: 3'- -GGUCa------UgAAUGGCACCGCAcUGGUGc -5'
Results 1 - 3 of 3 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 | |||||||
| 30963 | 3' | -52.6 | NC_006556.1 | + | 18292 | 1.11 | 0.000415 |
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Target: 5'- uCCAGUACUUACCGUGGCGUGACCACGa -3' miRNA: 3'- -GGUCAUGAAUGGCACCGCACUGGUGC- -5' |
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| 30963 | 3' | -52.6 | NC_006556.1 | + | 15293 | 0.71 | 0.323557 |
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Target: 5'- aCGGUugUUgGCCGcGGCGuUGGCCAUa -3' miRNA: 3'- gGUCAugAA-UGGCaCCGC-ACUGGUGc -5' |
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| 30963 | 3' | -52.6 | NC_006556.1 | + | 13524 | 0.7 | 0.377813 |
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Target: 5'- cCCAGcauauagGgUUAUCGUGGCGUuGCCGCu -3' miRNA: 3'- -GGUCa------UgAAUGGCACCGCAcUGGUGc -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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