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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 11648 | 3' | -57.7 | NC_003094.2 | + | 113506 | 1.06 | 0.002577 |
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Target: 5'- cAACAGUCGAGGACGCAGACGCAGCCGu -3' miRNA: 3'- -UUGUCAGCUCCUGCGUCUGCGUCGGC- -5' |
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| 11648 | 3' | -57.7 | NC_003094.2 | + | 113536 | 0.98 | 0.008795 |
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Target: 5'- cAACAGUCGcGGACGCAGACGCAGCCGa -3' miRNA: 3'- -UUGUCAGCuCCUGCGUCUGCGUCGGC- -5' |
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| 11648 | 3' | -57.7 | NC_003094.2 | + | 113473 | 0.7 | 0.559609 |
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Target: 5'- cAGCcGUaacCGAaGACGCAGuCGCAGCCGa -3' miRNA: 3'- -UUGuCA---GCUcCUGCGUCuGCGUCGGC- -5' |
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| 11648 | 3' | -57.7 | NC_003094.2 | + | 50182 | 0.68 | 0.692623 |
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Target: 5'- -----aCGAGuGGCgaGCGGACGCAGCCa -3' miRNA: 3'- uugucaGCUC-CUG--CGUCUGCGUCGGc -5' |
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| 11648 | 3' | -57.7 | NC_003094.2 | + | 75227 | 0.67 | 0.761836 |
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Target: 5'- gGGCGGUgGuacuGGugGCGGugGUGGuuGa -3' miRNA: 3'- -UUGUCAgCu---CCugCGUCugCGUCggC- -5' |
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| 11648 | 3' | -57.7 | NC_003094.2 | + | 16618 | 0.66 | 0.780705 |
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Target: 5'- gGACAGggcggCGGcGGuGCGC-GACGguGCCGa -3' miRNA: 3'- -UUGUCa----GCU-CC-UGCGuCUGCguCGGC- -5' |
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| 11648 | 3' | -57.7 | NC_003094.2 | + | 35773 | 0.66 | 0.807977 |
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Target: 5'- cGCGGUCGAauACGU--ACGCAGCCu -3' miRNA: 3'- uUGUCAGCUccUGCGucUGCGUCGGc -5' |
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| 11648 | 3' | -57.7 | NC_003094.2 | + | 81820 | 0.68 | 0.651746 |
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Target: 5'- cGGCGGUCGucGACGCAGuuccaGCGguGgCGg -3' miRNA: 3'- -UUGUCAGCucCUGCGUC-----UGCguCgGC- -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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