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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
16957 | 5' | -61.6 | NC_004322.1 | + | 5727 | 0.68 | 0.034303 |
Target: 5'- -cUAGAGCCCCuCGGCgGCcu-CACCc -3' miRNA: 3'- guGUCUCGGGGcGCCGgCGucuGUGG- -5' |
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16957 | 5' | -61.6 | NC_004322.1 | + | 1873 | 0.71 | 0.020743 |
Target: 5'- aCugAGAGCCCgCGCcuauGCCuCGGACAUCa -3' miRNA: 3'- -GugUCUCGGG-GCGc---CGGcGUCUGUGG- -5' |
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16957 | 5' | -61.6 | NC_004322.1 | + | 219 | 1.09 | 0.000006 |
Target: 5'- gCACAGAGCCCCGCGGCCGCAGACACCc -3' miRNA: 3'- -GUGUCUCGGGGCGCCGGCGUCUGUGG- -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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