miRNA: 3'- -GGCGCCCGACGGCGGUGCCGGACGAC- -5'
miRNA: 3'- -GGCG-----CCCGACGGCGG-------UGcCGGa-CGAC- -5'
miRNA: 3'- -GGCgCC-C-GACGGCGGuGCCGGACGAC- -5'
miRNA: 3'- -GGCGCCCGacGGCGGUgCCGGACGac -5'
miRNA: 3'- -GGCGCCCGacgGCgGUGCCG-GACGAc -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 | |||||||
| 21750 | 5' | -65.2 | NC_004813.1 | + | 38885 | 1.09 | 0.000122 |
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Target: 5'- cCCGCGGGCUGCCGCCACGGCCUGCUGa -3' miRNA: 3'- -GGCGCCCGACGGCGGUGCCGGACGAC- -5' |
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| 21750 | 5' | -65.2 | NC_004813.1 | + | 32569 | 0.69 | 0.161748 |
|
Target: 5'- uCCGCuuauaGGGUUGCCGCCgguguauGCcGCCggGCUGg -3' miRNA: 3'- -GGCG-----CCCGACGGCGG-------UGcCGGa-CGAC- -5' |
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| 21750 | 5' | -65.2 | NC_004813.1 | + | 23812 | 0.66 | 0.253916 |
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Target: 5'- aCUGgGGaGuCUGCUGUU-UGGCCUGCUGa -3' miRNA: 3'- -GGCgCC-C-GACGGCGGuGCCGGACGAC- -5' |
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| 21750 | 5' | -65.2 | NC_004813.1 | + | 48840 | 0.66 | 0.266402 |
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Target: 5'- cCUGUGGGC--CUGCCG-GGCCUGCc- -3' miRNA: 3'- -GGCGCCCGacGGCGGUgCCGGACGac -5' |
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| 21750 | 5' | -65.2 | NC_004813.1 | + | 22489 | 0.66 | 0.279379 |
|
Target: 5'- gCCGCGGGCaa-CGgUGCGGCuCUGUUa -3' miRNA: 3'- -GGCGCCCGacgGCgGUGCCG-GACGAc -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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