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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio #
|
P value |
| Predicted miRNA align pattern | |||||||
| 12221 | 3' | -46.7 | NC_003309.1 | + | 19046 | 0.71 | 0.891689 |
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Target: 5'- cAAUCGUG-AUCGGCcgUUgcugGAUCUGCGc -3' miRNA: 3'- -UUAGCGCuUAGCUGuaAG----UUAGACGC- -5' |
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| 12221 | 3' | -46.7 | NC_003309.1 | + | 19492 | 0.68 | 0.961883 |
|
Target: 5'- cGUCGCGAuUCGGCGUgCGG-CUGUa -3' miRNA: 3'- uUAGCGCUuAGCUGUAaGUUaGACGc -5' |
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| 12221 | 3' | -46.7 | NC_003309.1 | + | 8200 | 0.67 | 0.980954 |
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Target: 5'- cGUCGCGcucaGAUCGACGaacaccaGAUCUGCc -3' miRNA: 3'- uUAGCGC----UUAGCUGUaag----UUAGACGc -5' |
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| 12221 | 3' | -46.7 | NC_003309.1 | + | 24603 | 0.67 | 0.978416 |
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Target: 5'- ---aGCGGAUCGACGaugcggcUAAUCUGCu -3' miRNA: 3'- uuagCGCUUAGCUGUaa-----GUUAGACGc -5' |
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| 12221 | 3' | -46.7 | NC_003309.1 | + | 4988 | 0.66 | 0.987238 |
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Target: 5'- ---aGCGGcuucCGcGCGUUCGAUCUGCGc -3' miRNA: 3'- uuagCGCUua--GC-UGUAAGUUAGACGC- -5' |
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| 12221 | 3' | -46.7 | NC_003309.1 | + | 2281 | 0.66 | 0.987238 |
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Target: 5'- aGAUCGacucgGAAUCGACg--CGAUCgGCGa -3' miRNA: 3'- -UUAGCg----CUUAGCUGuaaGUUAGaCGC- -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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