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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
29329 | 5' | -49.2 | NC_006150.1 | + | 131813 | 0.66 | 0.999828 |
Target: 5'- uGGGGAUgcGCCGAgcCGUACcGGUuUCu- -3' miRNA: 3'- -CCCCUAa-UGGCUa-GCAUG-CCAuAGuu -5' |
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29329 | 5' | -49.2 | NC_006150.1 | + | 107430 | 0.66 | 0.999652 |
Target: 5'- cGGGGUggugaaCGcAUCGUGCGGUGUg-- -3' miRNA: 3'- cCCCUAaug---GC-UAGCAUGCCAUAguu -5' |
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29329 | 5' | -49.2 | NC_006150.1 | + | 94179 | 0.68 | 0.997836 |
Target: 5'- gGGGGAUgggACCGucaaaacgaguuUCuUugGGUAUCAGa -3' miRNA: 3'- -CCCCUAa--UGGCu-----------AGcAugCCAUAGUU- -5' |
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29329 | 5' | -49.2 | NC_006150.1 | + | 118332 | 0.69 | 0.995206 |
Target: 5'- cGGGGUUGCCGGagGUaaggugaGCGGUGUa-- -3' miRNA: 3'- cCCCUAAUGGCUagCA-------UGCCAUAguu -5' |
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29329 | 5' | -49.2 | NC_006150.1 | + | 152337 | 1.09 | 0.019385 |
Target: 5'- uGGGGAUUACCGAUCGUACGGUAUCAAg -3' miRNA: 3'- -CCCCUAAUGGCUAGCAUGCCAUAGUU- -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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