miRNA: 3'- guuuGCUCCUA--GCAG-UGGUCCGa--GGC- -5'
miRNA: 3'- -GUUUGCuCCu-------AGCAGUGG-----UCCGAGGC- -5'
miRNA: 3'- gUUUgCUCCUAGCAGUGgUcCGA-GGC- -5'
miRNA: 3'- guuuGCUCCUagcAGUGGU-CCGAGGC- -5'
miRNA: 3'- -GUUUGCUCCUAGCAGUgGUCCGAGGC- -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 | |||||||
| 18046 | 3' | -54 | NC_004680.1 | + | 50535 | 0.66 | 0.788966 |
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Target: 5'- ---cCGAGGAUgcUGUCgACCAGGCggaCUGg -3' miRNA: 3'- guuuGCUCCUA--GCAG-UGGUCCGa--GGC- -5' |
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| 18046 | 3' | -54 | NC_004680.1 | + | 49060 | 0.67 | 0.779072 |
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Target: 5'- uCAAGCGcGGugacuucuUCGUCAUCcgccaAGGCUCUGg -3' miRNA: 3'- -GUUUGCuCCu-------AGCAGUGG-----UCCGAGGC- -5' |
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| 18046 | 3' | -54 | NC_004680.1 | + | 8710 | 0.68 | 0.71691 |
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Target: 5'- uGAGgGGGGAUCGUCAUgGuGCUgCCGu -3' miRNA: 3'- gUUUgCUCCUAGCAGUGgUcCGA-GGC- -5' |
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| 18046 | 3' | -54 | NC_004680.1 | + | 25937 | 0.69 | 0.662699 |
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Target: 5'- ---cCGGGGA---UCACCAgGGCUCCGu -3' miRNA: 3'- guuuGCUCCUagcAGUGGU-CCGAGGC- -5' |
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| 18046 | 3' | -54 | NC_004680.1 | + | 607 | 0.96 | 0.012559 |
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Target: 5'- uCAAACGAGGAUCGUCA-CAGGCUCCGg -3' miRNA: 3'- -GUUUGCUCCUAGCAGUgGUCCGAGGC- -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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