miRNA: 3'- -GCGuAAGaa-CgGGCGCAGCCG-CUU-GC- -5'
miRNA: 3'- -GCGUAAGA-----------ACGGG----CgCAgCCG-CUUGC- -5'
miRNA: 3'- gCGUAA-GAACgGGCG---CAGCCGcuUGC- -5'
miRNA: 3'- gCGUaaGAACGGGCGcAGCCg---CUUGC- -5'
miRNA: 3'- -GC-GUaAGAACGGGCGCagCCGCUUgc -5'
Results 21 - 25 of 25 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 | |||||||
| 18766 | 3' | -55.4 | NC_004683.1 | + | 33929 | 0.67 | 0.682904 |
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Target: 5'- cCGUcUUCgcgGgCCGCGUCGGCuGGAuCGg -3' miRNA: 3'- -GCGuAAGaa-CgGGCGCAGCCG-CUU-GC- -5' |
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| 18766 | 3' | -55.4 | NC_004683.1 | + | 31198 | 0.67 | 0.682904 |
|
Target: 5'- gCGCGUUCUcacgaacacacUGCCCccgcGgGUgGGCaGAGCGa -3' miRNA: 3'- -GCGUAAGA-----------ACGGG----CgCAgCCG-CUUGC- -5' |
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| 18766 | 3' | -55.4 | NC_004683.1 | + | 52609 | 0.67 | 0.693666 |
|
Target: 5'- gGCAUUcCUUGgCCGCcucGUCGGCc-GCGa -3' miRNA: 3'- gCGUAA-GAACgGGCG---CAGCCGcuUGC- -5' |
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| 18766 | 3' | -55.4 | NC_004683.1 | + | 30049 | 0.66 | 0.746387 |
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Target: 5'- uGCA--CUUGUCCGCaUCGGaucuGGACGg -3' miRNA: 3'- gCGUaaGAACGGGCGcAGCCg---CUUGC- -5' |
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| 18766 | 3' | -55.4 | NC_004683.1 | + | 18310 | 0.66 | 0.756635 |
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Target: 5'- cCGaCAaUCUUGCCCGUG--GGCGAGu- -3' miRNA: 3'- -GC-GUaAGAACGGGCGCagCCGCUUgc -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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