miRNA: 3'- cCGACGCAG-------UCCCGca-GUCGCGCa--GC- -5'
miRNA: 3'- -CCGACG---CaGUCCCGCa---GUCG-CGCAGC- -5'
miRNA: 3'- -CCGACGCAGUCCCGCAGUCGCGCAGC- -5'
Results 21 - 23 of 23 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 | |||||||
| 26650 | 3' | -59.9 | NC_005808.1 | + | 12278 | 0.72 | 0.161485 |
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Target: 5'- uGCUGCGUCccgaccaGGGGCaggCAGCGCGggcCGg -3' miRNA: 3'- cCGACGCAG-------UCCCGca-GUCGCGCa--GC- -5' |
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| 26650 | 3' | -59.9 | NC_005808.1 | + | 32934 | 0.73 | 0.137642 |
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Target: 5'- cGGCUGUucgGcCAGGGCGaccaCGGCuGCGUCGa -3' miRNA: 3'- -CCGACG---CaGUCCCGCa---GUCG-CGCAGC- -5' |
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| 26650 | 3' | -59.9 | NC_005808.1 | + | 7244 | 1.11 | 0.000188 |
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Target: 5'- cGGCUGCGUCAGGGCGUCAGCGCGUCGg -3' miRNA: 3'- -CCGACGCAGUCCCGCAGUCGCGCAGC- -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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