miRNA: 3'- aCUGaCGUCCG-GGCGAACGCa--GUGUu -5'
miRNA: 3'- acUGACGUCCGG----GCGAACGCa--------GUGUU- -5'
miRNA: 3'- aCUGACGUCCG-GgCGa--ACGCa-GUGUu -5'
miRNA: 3'- -ACUGACGUCCGGGCGAACGCAGUGUU- -5'
miRNA: 3'- aCUGa--CGUC-CGGGCGAACGCaGUGUU- -5'
Results 21 - 25 of 25 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 6734 | 5' | -57.6 | NC_001875.2 | + | 112121 | 0.67 | 0.682929 |
|
Target: 5'- cGGC-GCGGGCgCCGUUUGCGaaaCGCGu -3' miRNA: 3'- aCUGaCGUCCG-GGCGAACGCa--GUGUu -5' |
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| 6734 | 5' | -57.6 | NC_001875.2 | + | 31011 | 0.69 | 0.578758 |
|
Target: 5'- -cGCUGCAGGCCgcggCGUUUGCGgcgguuuugCGCAAc -3' miRNA: 3'- acUGACGUCCGG----GCGAACGCa--------GUGUU- -5' |
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| 6734 | 5' | -57.6 | NC_001875.2 | + | 108832 | 0.7 | 0.517631 |
|
Target: 5'- cGGCUGCGGGCaCgGCggcUGCGggCACGg -3' miRNA: 3'- aCUGACGUCCG-GgCGa--ACGCa-GUGUu -5' |
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| 6734 | 5' | -57.6 | NC_001875.2 | + | 11121 | 1.06 | 0.002033 |
|
Target: 5'- uUGACUGCAGGCCCGCUUGCGUCACAAa -3' miRNA: 3'- -ACUGACGUCCGGGCGAACGCAGUGUU- -5' |
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| 6734 | 5' | -57.6 | NC_001875.2 | + | 29480 | 0.66 | 0.763489 |
|
Target: 5'- gGGCgccGCAGuGUCCGUUUGUG-CGCAAc -3' miRNA: 3'- aCUGa--CGUC-CGGGCGAACGCaGUGUU- -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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