miRNA: 3'- gAGUCUAGGACG--UCGGaaa-GGUCUGA- -5'
miRNA: 3'- gaGUCUaGGACGUCGg--AAAGgUCUGA- -5'
miRNA: 3'- gaGUCUAGGACg--------UCGGAAAGGUCUGA- -5'
miRNA: 3'- -GAGUCUAGGACGUCGGAAAGGUCUGA- -5'
Results 1 - 4 of 4 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 6113 | 5' | -53 | NC_001826.1 | + | 88237 | 0.66 | 0.941544 |
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Target: 5'- uUUAGGUCCUGUacAGUCgagaCCAGAUUa -3' miRNA: 3'- gAGUCUAGGACG--UCGGaaa-GGUCUGA- -5' |
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| 6113 | 5' | -53 | NC_001826.1 | + | 6141 | 0.68 | 0.864584 |
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Target: 5'- -cCGGA-CCUGCAGCacaUUUUgAGACUg -3' miRNA: 3'- gaGUCUaGGACGUCGg--AAAGgUCUGA- -5' |
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| 6113 | 5' | -53 | NC_001826.1 | + | 15924 | 0.68 | 0.864584 |
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Target: 5'- -cCAGAUCCUGauuccuaagAGUUUUUCCAGAUUu -3' miRNA: 3'- gaGUCUAGGACg--------UCGGAAAGGUCUGA- -5' |
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| 6113 | 5' | -53 | NC_001826.1 | + | 29159 | 1.08 | 0.004433 |
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Target: 5'- cCUCAGAUCCUGCAGCCUUUCCAGACUc -3' miRNA: 3'- -GAGUCUAGGACGUCGGAAAGGUCUGA- -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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