miRNA: 3'- -CGU-UCCUUGGUCACCggCGUgAgUCg -5'
miRNA: 3'- -CGUuCC-UUgGUCACCGGCG------UGAGuCG- -5'
miRNA: 3'- -CGUUCCuu-GGU--CACCgGCGUGa--GUCG- -5'
miRNA: 3'- -CGU---------UCCUUg--GUCACCgGCGUGAG-------UCG- -5'
miRNA: 3'- -CGUUCCUUGGUCACCGGCGUGAGUCG- -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 | |||||||
| 2524 | 5' | -54.9 | NC_001454.1 | + | 28153 | 0.66 | 0.603775 |
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Target: 5'- uGCAcAGGAGCCGGUGGggGCGgUgGGg -3' miRNA: 3'- -CGU-UCCUUGGUCACCggCGUgAgUCg -5' |
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| 2524 | 5' | -54.9 | NC_001454.1 | + | 16530 | 0.67 | 0.547104 |
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Target: 5'- gGCAuGGcGGgCAGUGGCCGCcgacgcGCUUuGCg -3' miRNA: 3'- -CGUuCC-UUgGUCACCGGCG------UGAGuCG- -5' |
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| 2524 | 5' | -54.9 | NC_001454.1 | + | 10213 | 0.67 | 0.513899 |
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Target: 5'- gGCGGGGuuuCCGucGUGGaCGCACggcCGGCg -3' miRNA: 3'- -CGUUCCuu-GGU--CACCgGCGUGa--GUCG- -5' |
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| 2524 | 5' | -54.9 | NC_001454.1 | + | 5914 | 0.67 | 0.512806 |
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Target: 5'- cGCAgcgccacucGGGAAagaCAGUGG-CGCGCUCgucgggaAGCa -3' miRNA: 3'- -CGU---------UCCUUg--GUCACCgGCGUGAG-------UCG- -5' |
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| 2524 | 5' | -54.9 | NC_001454.1 | + | 22667 | 1.14 | 0.000224 |
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Target: 5'- gGCAAGGAACCAGUGGCCGCACUCAGCg -3' miRNA: 3'- -CGUUCCUUGGUCACCGGCGUGAGUCG- -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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