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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 1276 | 3' | -55.9 | NC_001317.1 | + | 1199 | 1.09 | 0.000273 |
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Target: 5'- gUGGCUUGCGCUUGCUCAUGCUGCCACc -3' miRNA: 3'- -ACCGAACGCGAACGAGUACGACGGUG- -5' |
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| 1276 | 3' | -55.9 | NC_001317.1 | + | 2500 | 0.69 | 0.260654 |
|
Target: 5'- cUGGCgacaGCGCcgggUGCgUCGUGCUcgcGCCGCc -3' miRNA: 3'- -ACCGaa--CGCGa---ACG-AGUACGA---CGGUG- -5' |
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| 1276 | 3' | -55.9 | NC_001317.1 | + | 9937 | 0.66 | 0.446379 |
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Target: 5'- gUGGCga--GCUUGauaccgcuUUCGUGCUGCCGg -3' miRNA: 3'- -ACCGaacgCGAAC--------GAGUACGACGGUg -5' |
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| 1276 | 3' | -55.9 | NC_001317.1 | + | 24747 | 0.66 | 0.435975 |
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Target: 5'- cGGCUgcGCGCgUUGCUUAUGUgGCguuCGCg -3' miRNA: 3'- aCCGAa-CGCG-AACGAGUACGaCG---GUG- -5' |
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| 1276 | 3' | -55.9 | NC_001317.1 | + | 27364 | 0.66 | 0.45692 |
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Target: 5'- gUGGCgcgGcCGCUUGCgacgCAuUGCgGCUGCa -3' miRNA: 3'- -ACCGaa-C-GCGAACGa---GU-ACGaCGGUG- -5' |
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| 1276 | 3' | -55.9 | NC_001317.1 | + | 27874 | 0.67 | 0.395809 |
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Target: 5'- cUGGCauaUGCUuaUGUUCAUGUUGCCGg -3' miRNA: 3'- -ACCGaacGCGA--ACGAGUACGACGGUg -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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