miRNA: 3'- -GGUGUCCGcAGuGUUGUGACgAGAga -5'
miRNA: 3'- -GGUGuCCGCAgUGUUGUgACGAGaGa -5'
miRNA: 3'- gGuGUCCGCAGUGUUGugACGagaga -5'
miRNA: 3'- gGUGUCC-GCAGuGuuGUGACGaGAGA- -5'
miRNA: 3'- -GGUGUCCGCAGUGUUGUGACGAGAGA- -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 | |||||||
| 1040 | 5' | -53.1 | NC_000924.1 | + | 60426 | 0.66 | 0.826539 |
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Target: 5'- cCCGCAGGCuUUuCAGCAUUGgUCUg- -3' miRNA: 3'- -GGUGUCCGcAGuGUUGUGACgAGAga -5' |
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| 1040 | 5' | -53.1 | NC_000924.1 | + | 53767 | 0.67 | 0.817258 |
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Target: 5'- uCCGCuGGUGUgACAACA-UGCUC-Ca -3' miRNA: 3'- -GGUGuCCGCAgUGUUGUgACGAGaGa -5' |
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| 1040 | 5' | -53.1 | NC_000924.1 | + | 49314 | 0.68 | 0.747348 |
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Target: 5'- gC-CGGGUGUCGCAACugUGCa---- -3' miRNA: 3'- gGuGUCCGCAGUGUUGugACGagaga -5' |
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| 1040 | 5' | -53.1 | NC_000924.1 | + | 25570 | 0.71 | 0.550101 |
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Target: 5'- gCGCAGGaCGUC-CuuCACUGC-CUCUg -3' miRNA: 3'- gGUGUCC-GCAGuGuuGUGACGaGAGA- -5' |
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| 1040 | 5' | -53.1 | NC_000924.1 | + | 24425 | 1.09 | 0.001787 |
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Target: 5'- gCCACAGGCGUCACAACACUGCUCUCUu -3' miRNA: 3'- -GGUGUCCGCAGUGUUGUGACGAGAGA- -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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