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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
28086 | 3' | -57.8 | NC_005887.1 | + | 29935 | 0.67 | 0.42283 |
Target: 5'- cGCGCgCGcGGUGuCGUUGCccugcugguacUGGUUGAc -3' miRNA: 3'- cCGCG-GCuCCACuGCGACG-----------ACCAACU- -5' |
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28086 | 3' | -57.8 | NC_005887.1 | + | 21068 | 0.69 | 0.351065 |
Target: 5'- cGGCGCCGgugugGGGUGGCGUUGgCUugaacGGUa-- -3' miRNA: 3'- -CCGCGGC-----UCCACUGCGAC-GA-----CCAacu -5' |
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28086 | 3' | -57.8 | NC_005887.1 | + | 6329 | 1.11 | 0.000279 |
Target: 5'- cGGCGCCGAGGUGACGCUGCUGGUUGAa -3' miRNA: 3'- -CCGCGGCUCCACUGCGACGACCAACU- -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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