miRNA: 3'- cguAUCG-ACUCU-----AUAGUUCAG---UAGAC- -5'
miRNA: 3'- cGUAuCGACUCUaUAGUUCAG--UAGAc -5'
miRNA: 3'- -CGUAUCGACUCUAUAGUUCAGUAGAC- -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 | |||||||
| 3272 | 5' | -44.9 | NC_001542.1 | + | 7048 | 0.66 | 0.839417 |
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Target: 5'- --uUGGCuUGAGGccaauUAUCAAGUCuucAUCUGg -3' miRNA: 3'- cguAUCG-ACUCU-----AUAGUUCAG---UAGAC- -5' |
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| 3272 | 5' | -44.9 | NC_001542.1 | + | 6250 | 0.67 | 0.782111 |
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Target: 5'- aCAUuGCUGGGG-AUCAAGUCuuGUCUa -3' miRNA: 3'- cGUAuCGACUCUaUAGUUCAG--UAGAc -5' |
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| 3272 | 5' | -44.9 | NC_001542.1 | + | 6254 | 1.13 | 0.000855 |
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Target: 5'- gGCAUAGCUGAGAUAUCAAGUCAUCUGa -3' miRNA: 3'- -CGUAUCGACUCUAUAGUUCAGUAGAC- -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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