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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
31640 | 3' | -58.4 | NC_006879.1 | + | 21226 | 1.1 | 0.000212 |
Target: 5'- cGGGGUUGUGGAUACUGGCCAGGGCCGu -3' miRNA: 3'- -CCCCAACACCUAUGACCGGUCCCGGC- -5' |
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31640 | 3' | -58.4 | NC_006879.1 | + | 6176 | 0.68 | 0.313072 |
Target: 5'- aGGGGcgGUccccagggcaugGGGUG--GGUCAGGGCCGa -3' miRNA: 3'- -CCCCaaCA------------CCUAUgaCCGGUCCCGGC- -5' |
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31640 | 3' | -58.4 | NC_006879.1 | + | 10160 | 0.67 | 0.38117 |
Target: 5'- uGGGUcucgacgcggacgucGUGGAUGCggGGCCAGGcGCa- -3' miRNA: 3'- cCCCAa--------------CACCUAUGa-CCGGUCC-CGgc -5' |
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31640 | 3' | -58.4 | NC_006879.1 | + | 20012 | 0.66 | 0.389322 |
Target: 5'- aGGGGauagGGAUAgUUGGCCGGguaGGCCu -3' miRNA: 3'- -CCCCaacaCCUAU-GACCGGUC---CCGGc -5' |
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31640 | 3' | -58.4 | NC_006879.1 | + | 24664 | 0.66 | 0.426901 |
Target: 5'- cGGGGgcGUcGGg----GGCCGGGGCUu -3' miRNA: 3'- -CCCCaaCA-CCuaugaCCGGUCCCGGc -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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