miRNA: 3'- -GUGUuACa-----GAACCGGC----ACGUGCGUCc -5'
miRNA: 3'- -GU-GUUACAGaacCGGCaCGUgCGUCC- -5'
miRNA: 3'- -GUGUUacaGAACCG---GCA--CGUGCGUCC- -5'
miRNA: 3'- -GUGU---UACagaACCGGCaCGUGCGuCC- -5'
miRNA: 3'- guGUUACAGAACCg---GCACgUGCgUCC- -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 | |||||||
| 1865 | 5' | -53.1 | NC_001347.2 | + | 60861 | 0.67 | 0.974517 |
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Target: 5'- gCACAcUGgcagacCUUGGUCGacguUGCACGCGGa -3' miRNA: 3'- -GUGUuACa-----GAACCGGC----ACGUGCGUCc -5' |
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| 1865 | 5' | -53.1 | NC_001347.2 | + | 64412 | 0.67 | 0.983411 |
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Target: 5'- aCAcCGAUGUCga-GCCG-GCGgGCGGGu -3' miRNA: 3'- -GU-GUUACAGaacCGGCaCGUgCGUCC- -5' |
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| 1865 | 5' | -53.1 | NC_001347.2 | + | 92100 | 0.66 | 0.988364 |
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Target: 5'- aCACAGg--UUUGGCgccCGUagGCGCGCGGGu -3' miRNA: 3'- -GUGUUacaGAACCG---GCA--CGUGCGUCC- -5' |
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| 1865 | 5' | -53.1 | NC_001347.2 | + | 203430 | 0.66 | 0.98973 |
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Target: 5'- uCACGcccGUGgugUGGUCG-GCACGCuGGg -3' miRNA: 3'- -GUGU---UACagaACCGGCaCGUGCGuCC- -5' |
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| 1865 | 5' | -53.1 | NC_001347.2 | + | 65364 | 0.66 | 0.990967 |
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Target: 5'- -cCAGUGUUUUGGacguCGUGgACGgGGGu -3' miRNA: 3'- guGUUACAGAACCg---GCACgUGCgUCC- -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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