miRNA: 3'- aACUaGCGa-UAGACgGAGUGGCGAga -5'
miRNA: 3'- -AACUAGCGauaGACGG--AGUGGCGaGA- -5'
miRNA: 3'- -AACUAGCGauaGACGG--AGUGGCGaGA- -5'
miRNA: 3'- -AACUA---GCGAUAGACGGag-------UGGCGAGa -5'
miRNA: 3'- aACU-AGCGAUaGAC----GGAGUGGCGAGA- -5'
Results 1 - 5 of 5 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 | |||||||
| 8912 | 5' | -54.4 | NC_002484.1 | + | 32758 | 0.67 | 0.665408 |
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Target: 5'- gUGG-CGCcaAUCUGgCUCACCGCUa- -3' miRNA: 3'- aACUaGCGa-UAGACgGAGUGGCGAga -5' |
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| 8912 | 5' | -54.4 | NC_002484.1 | + | 40021 | 0.67 | 0.665408 |
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Target: 5'- cUUGGUCGCg--CUGCUggUCAUCGCgCUg -3' miRNA: 3'- -AACUAGCGauaGACGG--AGUGGCGaGA- -5' |
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| 8912 | 5' | -54.4 | NC_002484.1 | + | 30638 | 0.67 | 0.665408 |
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Target: 5'- cUUGGUCGCg--CUGCUggUCAUCGCgCUg -3' miRNA: 3'- -AACUAGCGauaGACGG--AGUGGCGaGA- -5' |
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| 8912 | 5' | -54.4 | NC_002484.1 | + | 12599 | 0.7 | 0.47787 |
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Target: 5'- gUUGAUcagCGCUAUCUGCCgcugauacgACUGCUCa -3' miRNA: 3'- -AACUA---GCGAUAGACGGag-------UGGCGAGa -5' |
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| 8912 | 5' | -54.4 | NC_002484.1 | + | 6622 | 0.7 | 0.467516 |
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Target: 5'- cUGGcUCGCUG-CUGacuaCCUCACUGCUCUc -3' miRNA: 3'- aACU-AGCGAUaGAC----GGAGUGGCGAGA- -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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