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miRNA: 3'- cCGACUaa--CACUaCGGCCAACaGuCU- -5'
miRNA: 3'- -CCGACUaa-CACUa-CGGCCAa---CAGUCU- -5'
miRNA: 3'- -CC-GACUaa----CACUACGGCCA-----ACaGUCU- -5'
miRNA: 3'- -CCGACUA--ACACUa--CGGccAACAGUCU- -5'
miRNA: 3'- -CCGACUAACACUACGGCCAACAGUCU- -5'
Results 1 - 5 of 5 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 | |||||||
| 1273 | 5' | -50.5 | NC_001317.1 | + | 11291 | 0.68 | 0.692002 |
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Target: 5'- uGCUGAggacGUGAgGCCGGUUG-CuGAc -3' miRNA: 3'- cCGACUaa--CACUaCGGCCAACaGuCU- -5' |
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| 1273 | 5' | -50.5 | NC_001317.1 | + | 6750 | 0.68 | 0.692003 |
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Target: 5'- aGGUUGGgcgGUGGacGCCGGUcgccGUCAGGu -3' miRNA: 3'- -CCGACUaa-CACUa-CGGCCAa---CAGUCU- -5' |
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| 1273 | 5' | -50.5 | NC_001317.1 | + | 6404 | 0.69 | 0.632778 |
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Target: 5'- aGGcCUGAcccugcGUGAUGCCGGUaugaaUG-CAGAg -3' miRNA: 3'- -CC-GACUaa----CACUACGGCCA-----ACaGUCU- -5' |
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| 1273 | 5' | -50.5 | NC_001317.1 | + | 14159 | 0.71 | 0.515635 |
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Target: 5'- uGGCUGGUcuUGUGAgggGCUauUUGUCAGGg -3' miRNA: 3'- -CCGACUA--ACACUa--CGGccAACAGUCU- -5' |
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| 1273 | 5' | -50.5 | NC_001317.1 | + | 28796 | 1.13 | 0.000787 |
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Target: 5'- cGGCUGAUUGUGAUGCCGGUUGUCAGAg -3' miRNA: 3'- -CCGACUAACACUACGGCCAACAGUCU- -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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