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miRNA: 3'- uuuuaCUGCG-GGUCcCAGGGGcCUGC- -5'
miRNA: 3'- uuuuaCUG--CGGGUCCCAGgggCCUGC- -5'
miRNA: 3'- uuuuaCUGCGGgUCCCa-GGg----GCCUGc -5'
miRNA: 3'- uuuuaCUGCGGg---UCCCa--------GGGGCCUGc -5'
Results 41 - 44 of 44 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 | |||||||
| 16235 | 5' | -58.2 | NC_004065.1 | + | 32481 | 0.66 | 0.893083 |
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Target: 5'- ----cGGCGCgCCAGuGUCCCUuGACGa -3' miRNA: 3'- uuuuaCUGCG-GGUCcCAGGGGcCUGC- -5' |
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| 16235 | 5' | -58.2 | NC_004065.1 | + | 120876 | 0.66 | 0.886584 |
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Target: 5'- ----cGGCuuGCCCGGGGUCa--GGGCGg -3' miRNA: 3'- uuuuaCUG--CGGGUCCCAGgggCCUGC- -5' |
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| 16235 | 5' | -58.2 | NC_004065.1 | + | 186878 | 0.66 | 0.893083 |
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Target: 5'- ----gGACGCCgGGGGggCCaucuaCGGGCa -3' miRNA: 3'- uuuuaCUGCGGgUCCCa-GGg----GCCUGc -5' |
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| 16235 | 5' | -58.2 | NC_004065.1 | + | 109524 | 0.66 | 0.89937 |
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Target: 5'- ----cGGCGCCaagaGGGGgucgaugaaCCCCGGAUu -3' miRNA: 3'- uuuuaCUGCGGg---UCCCa--------GGGGCCUGc -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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