miRNA display CGI


Results 1 - 12 of 12 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
2356 5' -53.7 NC_001416.1 + 14955 0.66 0.762006
Target:  5'- gGCGGGACGUCAGCacuccGGGuuaacGGCGCaguUACa -3'
miRNA:   3'- gCGCUUUGCAGUCG-----CCU-----UCGUG---GUGa -5'
2356 5' -53.7 NC_001416.1 + 12654 0.66 0.740888
Target:  5'- gGCGggGCuGUUGGUGGcGGCGcauCCGCg -3'
miRNA:   3'- gCGCuuUG-CAGUCGCCuUCGU---GGUGa -5'
2356 5' -53.7 NC_001416.1 + 12041 0.66 0.73982
Target:  5'- gGCGGAGaGUCAGUucgcgguacuggaGGAGGCGgCGCa -3'
miRNA:   3'- gCGCUUUgCAGUCG-------------CCUUCGUgGUGa -5'
2356 5' -53.7 NC_001416.1 + 32272 0.67 0.719313
Target:  5'- uGCaGAACGUCAGcCGGAAcgcGaCAUCACUc -3'
miRNA:   3'- gCGcUUUGCAGUC-GCCUU---C-GUGGUGA- -5'
2356 5' -53.7 NC_001416.1 + 14156 0.68 0.641593
Target:  5'- gGCGAuguGCGcCAGCGGAGucGUGCgGCUu -3'
miRNA:   3'- gCGCUu--UGCaGUCGCCUU--CGUGgUGA- -5'
2356 5' -53.7 NC_001416.1 + 8111 0.68 0.641593
Target:  5'- aCGCGGuuAAUGgccauugCGGCGGcaccAGGCACCGCc -3'
miRNA:   3'- -GCGCU--UUGCa------GUCGCC----UUCGUGGUGa -5'
2356 5' -53.7 NC_001416.1 + 13708 0.69 0.607923
Target:  5'- --aGAAAcCGUCAGCGuGggGCGCgUACUg -3'
miRNA:   3'- gcgCUUU-GCAGUCGC-CuuCGUG-GUGA- -5'
2356 5' -53.7 NC_001416.1 + 12017 0.69 0.607923
Target:  5'- uGCcuGAAGCGUCAGCaGGGcAGCAUgagCACUg -3'
miRNA:   3'- gCG--CUUUGCAGUCG-CCU-UCGUG---GUGA- -5'
2356 5' -53.7 NC_001416.1 + 9107 0.69 0.585569
Target:  5'- aCGCGAccagucAACGUCugaaAGCGGAuucgcguaagGGuCACCGCUc -3'
miRNA:   3'- -GCGCU------UUGCAG----UCGCCU----------UC-GUGGUGA- -5'
2356 5' -53.7 NC_001416.1 + 4813 0.69 0.563376
Target:  5'- gGCGGGAUGgUGGCGGggGCAUUugACUg -3'
miRNA:   3'- gCGCUUUGCaGUCGCCuuCGUGG--UGA- -5'
2356 5' -53.7 NC_001416.1 + 46080 0.69 0.563376
Target:  5'- uGCaGAuGCGUCAGCGuGAuguuGCugCGCUc -3'
miRNA:   3'- gCG-CUuUGCAGUCGC-CUu---CGugGUGA- -5'
2356 5' -53.7 NC_001416.1 + 18661 1.09 0.001281
Target:  5'- cCGCGAAACGUCAGCGGAAGCACCACUa -3'
miRNA:   3'- -GCGCUUUGCAGUCGCCUUCGUGGUGA- -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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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.