miRNA: 3'- cGGUCUUGGA---CCGG----------CCGGUCCaCGag -5'
miRNA: 3'- -CGGUCuUGGaccGGCCGGU-CCACGag -5'
miRNA: 3'- -CGGUCUUGG-ACCGGc-------CGgUCCa--CGAG- -5'
Results 41 - 43 of 43 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 | |||||||
| 11976 | 3' | -60.8 | NC_003278.1 | + | 10506 | 0.66 | 0.298568 |
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Target: 5'- uCCAGAGCCUcgaGGCUgucagccauuGGCCGGGcGCc- -3' miRNA: 3'- cGGUCUUGGA---CCGG----------CCGGUCCaCGag -5' |
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| 11976 | 3' | -60.8 | NC_003278.1 | + | 32742 | 0.66 | 0.313827 |
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Target: 5'- gGCCAGuACUa--CCGGCCAgGGUGCa- -3' miRNA: 3'- -CGGUCuUGGaccGGCCGGU-CCACGag -5' |
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| 11976 | 3' | -60.8 | NC_003278.1 | + | 34267 | 0.66 | 0.313827 |
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Target: 5'- gGCCAGAGCUaUGGCCucgcugacGCgGGGgccGCUCc -3' miRNA: 3'- -CGGUCUUGG-ACCGGc-------CGgUCCa--CGAG- -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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