miRNA: 3'- -UGUCGaCGGUCUACC-----------GUaGCUGUugC- -5'
miRNA: 3'- -UGUC--------GACGGU-CUACCGuAGCUGU---UGC- -5'
miRNA: 3'- -UGUCGaCGGucUA-CCGUa---GCUGUUGC- -5'
Results 41 - 43 of 43 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 | |||||||
| 28724 | 3' | -53.6 | NC_006146.1 | + | 116842 | 0.69 | 0.876841 |
|
Target: 5'- cGCGGCgGCCAGGUGGgcccugaccacCGcCGACAugGc -3' miRNA: 3'- -UGUCGaCGGUCUACC-----------GUaGCUGUugC- -5' |
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| 28724 | 3' | -53.6 | NC_006146.1 | + | 110275 | 0.69 | 0.88403 |
|
Target: 5'- uGCAGagccccguCUGCCAuGAUGGCcUCGGCGuagGCGu -3' miRNA: 3'- -UGUC--------GACGGU-CUACCGuAGCUGU---UGC- -5' |
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| 28724 | 3' | -53.6 | NC_006146.1 | + | 40438 | 0.66 | 0.969392 |
|
Target: 5'- gGCAGCgGCCccGUaGGCGggugCGGCAAUGg -3' miRNA: 3'- -UGUCGaCGGucUA-CCGUa---GCUGUUGC- -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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