miRNA: 3'- caCACU------CCG-----------CAGAACu-CCCCUCGGAG- -5'
miRNA: 3'- -CACACu--C-CGCAGAACUC-CCCU--C-GGAG- -5'
miRNA: 3'- cACACuCCGCAGaa------------CUCCCCUCGGAg -5'
miRNA: 3'- -CACACUCCGCAGAACUCCCCUCGGAG- -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 | |||||||
| 28381 | 5' | -58 | NC_005946.1 | + | 9003 | 0.67 | 0.62952 |
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Target: 5'- -cGUGAcagacaGGUucagccugauuGUCUUGccGGGGAGCCUCu -3' miRNA: 3'- caCACU------CCG-----------CAGAACu-CCCCUCGGAG- -5' |
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| 28381 | 5' | -58 | NC_005946.1 | + | 7041 | 0.68 | 0.598195 |
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Target: 5'- gGUGUGcgcGuGCGUCUUGGGuGGGAugGcCCUCa -3' miRNA: 3'- -CACACu--C-CGCAGAACUC-CCCU--C-GGAG- -5' |
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| 28381 | 5' | -58 | NC_005946.1 | + | 3101 | 0.71 | 0.440234 |
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Target: 5'- cUGUG-GGUGUCgcugugaggaccaaGAGGGGGGCCUg -3' miRNA: 3'- cACACuCCGCAGaa------------CUCCCCUCGGAg -5' |
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| 28381 | 5' | -58 | NC_005946.1 | + | 44530 | 1.09 | 0.000993 |
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Target: 5'- gGUGUGAGGCGUCUUGAGGGGAGCCUCg -3' miRNA: 3'- -CACACUCCGCAGAACUCCCCUCGGAG- -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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