miRNA: 3'- gcgAGGCUCUgUAGCCACAg----UUGGaG- -5'
miRNA: 3'- gCGAGg-----CU-CUGUAGCC------ACAGUUGGAG- -5'
miRNA: 3'- -GCGAgGCUCUgU----AGCCACAGU---UGGag -5'
Results 21 - 23 of 23 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 10356 | 5' | -54.2 | NC_002687.1 | + | 76815 | 0.69 | 0.961892 |
|
Target: 5'- --aUCCGAGAgGUCGGUGUagucaAACC-Cg -3' miRNA: 3'- gcgAGGCUCUgUAGCCACAg----UUGGaG- -5' |
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| 10356 | 5' | -54.2 | NC_002687.1 | + | 131564 | 0.71 | 0.918143 |
|
Target: 5'- uGCUCauaacaGAcGACAUCGGauuagcUGUCGACCUUu -3' miRNA: 3'- gCGAGg-----CU-CUGUAGCC------ACAGUUGGAG- -5' |
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| 10356 | 5' | -54.2 | NC_002687.1 | + | 83696 | 0.66 | 0.995582 |
|
Target: 5'- cCGUUgCGAGAgAggauUCGGUGUCGcuaGCCg- -3' miRNA: 3'- -GCGAgGCUCUgU----AGCCACAGU---UGGag -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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