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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
15385 | 3' | -54.4 | NC_003900.1 | + | 8305 | 0.66 | 0.294452 |
Target: 5'- uGGUAGCcauagUCCUAGGAGGaGCuaauGAAGUg -3' miRNA: 3'- cCUAUUGa----GGGGUCCUCC-CGu---CUUCA- -5' |
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15385 | 3' | -54.4 | NC_003900.1 | + | 6265 | 0.68 | 0.220012 |
Target: 5'- uGGGaAGCUCCUCAGuuucgcuGGGCAGAAuGUa -3' miRNA: 3'- -CCUaUUGAGGGGUCcu-----CCCGUCUU-CA- -5' |
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15385 | 3' | -54.4 | NC_003900.1 | + | 3367 | 1.09 | 0.000134 |
Target: 5'- gGGAUAACUCCCCAGGAGGGCAGAAGUu -3' miRNA: 3'- -CCUAUUGAGGGGUCCUCCCGUCUUCA- -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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