miRNA: 3'- -GGuGGUGG-------ACUC--------------UGGGGAGGG-GC-UCG- -5'
miRNA: 3'- -GGUGGUgg-ACUCUgGGGAGG-GGCUCG- -5'
miRNA: 3'- -GGUGGUGGACUCUGGGGAGGGGCUCG- -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 | |||||||
| 9822 | 3' | -60.2 | NC_002604.1 | + | 3932 | 0.65 | 0.095678 |
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Target: 5'- cCCuCCGCCucaucuaUGAGacccaaagcagcaaGCCCCUCCCgCGaAGUa -3' miRNA: 3'- -GGuGGUGG-------ACUC--------------UGGGGAGGG-GC-UCG- -5' |
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| 9822 | 3' | -60.2 | NC_002604.1 | + | 3824 | 0.68 | 0.063742 |
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Target: 5'- cCUGCCAaggUGAGA-CCUUCCaCCGAGCu -3' miRNA: 3'- -GGUGGUgg-ACUCUgGGGAGG-GGCUCG- -5' |
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| 9822 | 3' | -60.2 | NC_002604.1 | + | 6582 | 1.12 | 0.000009 |
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Target: 5'- cCCACCACCUGAGACCCCUCCCCGAGCc -3' miRNA: 3'- -GGUGGUGGACUCUGGGGAGGGGCUCG- -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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