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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
28814 | 3' | -52.3 | NC_006146.1 | + | 56775 | 0.66 | 0.985897 |
Target: 5'- -aGCACGCGcagGCCUccucggUGAGCGcgGc -3' miRNA: 3'- agUGUGCGCa--CGGAaca---ACUCGCuaC- -5' |
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28814 | 3' | -52.3 | NC_006146.1 | + | 154256 | 0.66 | 0.980016 |
Target: 5'- cCGCugGUGgGCCUcagGUUGAcgGUGAUGu -3' miRNA: 3'- aGUGugCGCaCGGAa--CAACU--CGCUAC- -5' |
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28814 | 3' | -52.3 | NC_006146.1 | + | 49947 | 0.68 | 0.94736 |
Target: 5'- gCGCACuCGUGacgguUCUUGgagUGGGCGAUGg -3' miRNA: 3'- aGUGUGcGCAC-----GGAACa--ACUCGCUAC- -5' |
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28814 | 3' | -52.3 | NC_006146.1 | + | 152485 | 0.79 | 0.441237 |
Target: 5'- aUCugGCGCGUgcGCCUUGUgaGGGUGAUGa -3' miRNA: 3'- -AGugUGCGCA--CGGAACAa-CUCGCUAC- -5' |
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28814 | 3' | -52.3 | NC_006146.1 | + | 97087 | 1.1 | 0.005629 |
Target: 5'- aUCACACGCGUGCCUUGUUGAGCGAUGg -3' miRNA: 3'- -AGUGUGCGCACGGAACAACUCGCUAC- -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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