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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
28339 | 5' | -58 | NC_005946.1 | + | 26296 | 0.67 | 0.648578 |
Target: 5'- aGGGUGAGUGgagUCUCUUUCUGC-CUGGc -3' miRNA: 3'- -CUCACUCGCa--GGGGGAAGACGuGGCU- -5' |
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28339 | 5' | -58 | NC_005946.1 | + | 60014 | 0.69 | 0.535428 |
Target: 5'- cGAGguaAGCGUCuCCCUUUUUGgGCCGGc -3' miRNA: 3'- -CUCac-UCGCAG-GGGGAAGACgUGGCU- -5' |
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28339 | 5' | -58 | NC_005946.1 | + | 4247 | 1.08 | 0.001415 |
Target: 5'- gGAGUGAGCGUCCCCCUUCUGCACCGAc -3' miRNA: 3'- -CUCACUCGCAGGGGGAAGACGUGGCU- -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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