miRNA: 3'- cCGU------CAGUAAGG-GUAGACUCa---GAGGc -5'
miRNA: 3'- ccgUCAGUaAGGGUAGaCUCaGAGGc -5'
miRNA: 3'- -CCGUCAGUAAGGGUAGACUCAGAGGC- -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 | |||||||
| 31299 | 5' | -52.3 | NC_006623.1 | + | 80834 | 0.68 | 0.958087 |
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Target: 5'- uGCAaagaucGUUAUUCCaCAUCUGAGauugCUCCu -3' miRNA: 3'- cCGU------CAGUAAGG-GUAGACUCa---GAGGc -5' |
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| 31299 | 5' | -52.3 | NC_006623.1 | + | 27481 | 0.69 | 0.931045 |
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Target: 5'- --aAGUCAaUCCCAUCaGAG-CUCCa -3' miRNA: 3'- ccgUCAGUaAGGGUAGaCUCaGAGGc -5' |
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| 31299 | 5' | -52.3 | NC_006623.1 | + | 846 | 1.13 | 0.003731 |
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Target: 5'- cGGCAGUCAUUCCCAUCUGAGUCUCCGg -3' miRNA: 3'- -CCGUCAGUAAGGGUAGACUCAGAGGC- -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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