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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
12428 | 5' | -58.9 | NC_003324.1 | + | 18718 | 0.68 | 0.399245 |
Target: 5'- uUUCACUGGcGACGCGCugcGGGuguucucgucGCACAUg -3' miRNA: 3'- gAGGUGACC-UUGCGCGu--CCC----------CGUGUA- -5' |
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12428 | 5' | -58.9 | NC_003324.1 | + | 37998 | 0.68 | 0.398341 |
Target: 5'- -gCCAUgccGGAGCgguugcgGCGCAcGGGGCGCGUc -3' miRNA: 3'- gaGGUGa--CCUUG-------CGCGU-CCCCGUGUA- -5' |
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12428 | 5' | -58.9 | NC_003324.1 | + | 36543 | 0.7 | 0.272039 |
Target: 5'- aCUCCGauCUGGAACaaGCGCcGcGGGCGCGa -3' miRNA: 3'- -GAGGU--GACCUUG--CGCGuC-CCCGUGUa -5' |
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12428 | 5' | -58.9 | NC_003324.1 | + | 10324 | 0.73 | 0.192874 |
Target: 5'- aUCCGCUccuagaaacaguagGGGGCGCGCuGGGGCuCAc -3' miRNA: 3'- gAGGUGA--------------CCUUGCGCGuCCCCGuGUa -5' |
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12428 | 5' | -58.9 | NC_003324.1 | + | 11454 | 1.05 | 0.000809 |
Target: 5'- uCUCCACUGGAACGCGCAGGGGCACAUu -3' miRNA: 3'- -GAGGUGACCUUGCGCGUCCCCGUGUA- -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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