miRNA: 3'- -AUUAG-UCUG--CCGAACACGUa----UUCGaa -5'
miRNA: 3'- aUUAGUCUgCCGAACaCGUauu-CGAA- -5'
miRNA: 3'- -AUUAGUCUGCCGAACACGUAUUCGAA- -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# |
P value
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| Predicted miRNA align pattern | |||||||
| 9422 | 3' | -48.6 | NC_002531.1 | + | 39654 | 0.66 | 0.995545 |
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Target: 5'- cUAGUCuGGACgaGGCUUGUGCAacagaGGGCg- -3' miRNA: 3'- -AUUAG-UCUG--CCGAACACGUa----UUCGaa -5' |
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| 9422 | 3' | -48.6 | NC_002531.1 | + | 94554 | 0.66 | 0.993856 |
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Target: 5'- aGAUCAGG-GGCUUGcGCAguguGCUUa -3' miRNA: 3'- aUUAGUCUgCCGAACaCGUauu-CGAA- -5' |
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| 9422 | 3' | -48.6 | NC_002531.1 | + | 30193 | 1.03 | 0.019805 |
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Target: 5'- cUAAUCAGACGGCUUGUGCAUAAGCUUu -3' miRNA: 3'- -AUUAGUCUGCCGAACACGUAUUCGAA- -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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