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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
30641 | 3' | -58.4 | NC_006549.1 | + | 40686 | 0.66 | 0.798921 |
Target: 5'- uCGCGGa--CAAAUGGGCCCgcaaggucugGGCGg-- -3' miRNA: 3'- -GCGCCaucGUUUGCCCGGG----------CCGCaaa -5' |
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30641 | 3' | -58.4 | NC_006549.1 | + | 57234 | 0.66 | 0.771481 |
Target: 5'- cCGCGGUGGUcAGCaGGGCCCucGCu--- -3' miRNA: 3'- -GCGCCAUCGuUUG-CCCGGGc-CGcaaa -5' |
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30641 | 3' | -58.4 | NC_006549.1 | + | 82827 | 0.7 | 0.561777 |
Target: 5'- cCGCGGgAGCcggcgcugccgGAGCGGGCUugaCGGCGUc- -3' miRNA: 3'- -GCGCCaUCG-----------UUUGCCCGG---GCCGCAaa -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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