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miRNA: 3'- cuUCCCCUCUUGUGgu-UGCCgC-CUCC- -5'
miRNA: 3'- cuUCCCCUCUUGUGGUU------GCCGCcucc -5'
miRNA: 3'- -CUUCCCCUCUUGUGGUUGCCGCCUCC- -5'
Results 1 - 3 of 3 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 | |||||||
| 27313 | 3' | -55.7 | NC_005856.1 | + | 41784 | 0.67 | 0.778485 |
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Target: 5'- -cAGGGGGGGGCGCaauAUGGaGuGAGGg -3' miRNA: 3'- cuUCCCCUCUUGUGgu-UGCCgC-CUCC- -5' |
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| 27313 | 3' | -55.7 | NC_005856.1 | + | 2455 | 0.71 | 0.531919 |
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Target: 5'- -cAGGGGAGAGCGCCAAgagcauUGGCGa--- -3' miRNA: 3'- cuUCCCCUCUUGUGGUU------GCCGCcucc -5' |
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| 27313 | 3' | -55.7 | NC_005856.1 | + | 2298 | 1.1 | 0.001537 |
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Target: 5'- uGAAGGGGAGAACACCAACGGCGGAGGa -3' miRNA: 3'- -CUUCCCCUCUUGUGGUUGCCGCCUCC- -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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