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miRNA: 3'- uUCGCGC-GGG----UGGU---UCGGU---GAUCGac -5'
miRNA: 3'- -UUCGCg-CGGGUGGuuCGGUga-UCGAC- -5'
miRNA: 3'- -UUCGCGCGGGUGGUUCGGUGAUCGAC- -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#
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P value |
| Predicted miRNA align pattern | |||||||
| 15648 | 3' | -59 | NC_004064.1 | + | 2883 | 0.67 | 0.071898 |
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Target: 5'- cAGCGCGaCCCcgcuGCCAgauAGCCAgccCUGGCg- -3' miRNA: 3'- uUCGCGC-GGG----UGGU---UCGGU---GAUCGac -5' |
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| 15648 | 3' | -59 | NC_004064.1 | + | 607 | 0.68 | 0.053045 |
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Target: 5'- gGGGUGgaGCCCAUUggGCCAaggGGCUGu -3' miRNA: 3'- -UUCGCg-CGGGUGGuuCGGUga-UCGAC- -5' |
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| 15648 | 3' | -59 | NC_004064.1 | + | 5198 | 1.06 | 2.1e-05 |
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Target: 5'- cAAGCGCGCCCACCAAGCCACUAGCUGg -3' miRNA: 3'- -UUCGCGCGGGUGGUUCGGUGAUCGAC- -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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