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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
33689 | 3' | -55.8 | NC_011452.1 | + | 3627 | 0.68 | 0.102966 |
Target: 5'- aAAACCcAGCacgUUGUAgCaCGCCGUGGCg -3' miRNA: 3'- -UUUGGuUCG---AACGUgG-GUGGCACCGa -5' |
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33689 | 3' | -55.8 | NC_011452.1 | + | 3430 | 0.69 | 0.08706 |
Target: 5'- uAGCCGAGCgcaggaUUGCGCCCACCaauGUGuGUUc -3' miRNA: 3'- uUUGGUUCG------AACGUGGGUGG---CAC-CGA- -5' |
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33689 | 3' | -55.8 | NC_011452.1 | + | 6690 | 1.05 | 0.000081 |
Target: 5'- aAAACCAAGCUUGCACCCACCGUGGCUc -3' miRNA: 3'- -UUUGGUUCGAACGUGGGUGGCACCGA- -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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