miRNA: 3'- -GGUCagCCGGCACCUCuC-CGCaGCGG- -5'
miRNA: 3'- -GGUCAGC----------CGGCACC-----UCU-----CCGCaGCGG- -5'
miRNA: 3'- gGUCA--GCCGgCACCUCuCCGCaGCGg -5'
miRNA: 3'- -GGUCAgC--CGGCACCucuCCGCAGCGG- -5'
miRNA: 3'- -GGUCAGCCGGCACCUCUCCGCAGCGG- -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 | |||||||
| 1541 | 3' | -60 | NC_001347.2 | + | 68734 | 0.7 | 0.658503 |
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Target: 5'- gUCGGa-GGCCGUGGAGcGaGUGcCGCCg -3' miRNA: 3'- -GGUCagCCGGCACCUCuC-CGCaGCGG- -5' |
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| 1541 | 3' | -60 | NC_001347.2 | + | 81601 | 0.71 | 0.62991 |
|
Target: 5'- gCCGGUCGcucgcgaaaaGCCGUGGcauugAGAcgcacGGCGcCGCCg -3' miRNA: 3'- -GGUCAGC----------CGGCACC-----UCU-----CCGCaGCGG- -5' |
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| 1541 | 3' | -60 | NC_001347.2 | + | 65720 | 0.72 | 0.563524 |
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Target: 5'- aCGGUggCGGCgGUGGAG-GGCG-CGCg -3' miRNA: 3'- gGUCA--GCCGgCACCUCuCCGCaGCGg -5' |
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| 1541 | 3' | -60 | NC_001347.2 | + | 39370 | 0.73 | 0.499134 |
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Target: 5'- cCCGGUgGacGCCGUGGcccGGCGUCGUCg -3' miRNA: 3'- -GGUCAgC--CGGCACCucuCCGCAGCGG- -5' |
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| 1541 | 3' | -60 | NC_001347.2 | + | 222404 | 1.14 | 0.001204 |
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Target: 5'- aCCAGUCGGCCGUGGAGAGGCGUCGCCg -3' miRNA: 3'- -GGUCAGCCGGCACCUCUCCGCAGCGG- -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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