miRNA display CGI


Results 1 - 20 of 32 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
8109 3' -50 NC_001978.2 + 21708 1.12 0.00146
Target:  5'- aGUCACAGCGUCACUUCAUCACUCAGCc -3'
miRNA:   3'- -CAGUGUCGCAGUGAAGUAGUGAGUCG- -5'
8109 3' -50 NC_001978.2 + 10625 0.8 0.20136
Target:  5'- uGUCgGCAGCGUCG--UCGUUGCUCAGCg -3'
miRNA:   3'- -CAG-UGUCGCAGUgaAGUAGUGAGUCG- -5'
8109 3' -50 NC_001978.2 + 8191 0.78 0.287667
Target:  5'- gGUCACGGCGUCcgcgaaggGCgccgUCAUCaaggcagGCUCAGCg -3'
miRNA:   3'- -CAGUGUCGCAG--------UGa---AGUAG-------UGAGUCG- -5'
8109 3' -50 NC_001978.2 + 30058 0.77 0.320617
Target:  5'- gGUCGCuuCGaUCACUUCG-CGCUCAGCg -3'
miRNA:   3'- -CAGUGucGC-AGUGAAGUaGUGAGUCG- -5'
8109 3' -50 NC_001978.2 + 36572 0.75 0.432606
Target:  5'- cGUgGCAGUG-CACUUgAUCGCUcCGGCg -3'
miRNA:   3'- -CAgUGUCGCaGUGAAgUAGUGA-GUCG- -5'
8109 3' -50 NC_001978.2 + 22959 0.73 0.529991
Target:  5'- aGUCGC-GCGUCACgggCGUCACgaugAGCg -3'
miRNA:   3'- -CAGUGuCGCAGUGaa-GUAGUGag--UCG- -5'
8109 3' -50 NC_001978.2 + 4297 0.71 0.634275
Target:  5'- cUCAC-GCGUCGuCUUCGUCAUcuucuUCAGUu -3'
miRNA:   3'- cAGUGuCGCAGU-GAAGUAGUG-----AGUCG- -5'
8109 3' -50 NC_001978.2 + 36501 0.71 0.645998
Target:  5'- uUCGCcaaCGUCcCUUCAgCGCUCAGCg -3'
miRNA:   3'- cAGUGuc-GCAGuGAAGUaGUGAGUCG- -5'
8109 3' -50 NC_001978.2 + 40461 0.71 0.645998
Target:  5'- cGUCACAGCaUCACUUCccccagGUCAa-CGGCu -3'
miRNA:   3'- -CAGUGUCGcAGUGAAG------UAGUgaGUCG- -5'
8109 3' -50 NC_001978.2 + 40239 0.7 0.692621
Target:  5'- -cCugGGCGUCGuCUucgucgUCGUCGgUCGGCg -3'
miRNA:   3'- caGugUCGCAGU-GA------AGUAGUgAGUCG- -5'
8109 3' -50 NC_001978.2 + 32716 0.68 0.7818
Target:  5'- -cCAgGGCGUCAg--CGUCAgUCGGCc -3'
miRNA:   3'- caGUgUCGCAGUgaaGUAGUgAGUCG- -5'
8109 3' -50 NC_001978.2 + 39761 0.68 0.7818
Target:  5'- -cCACAGaagcgccaaCGUCuCUUCGUCGCcuUCGGCg -3'
miRNA:   3'- caGUGUC---------GCAGuGAAGUAGUG--AGUCG- -5'
8109 3' -50 NC_001978.2 + 9779 0.68 0.7818
Target:  5'- cGUCACAGCgGUCGCgaua-CGCUCcGCc -3'
miRNA:   3'- -CAGUGUCG-CAGUGaaguaGUGAGuCG- -5'
8109 3' -50 NC_001978.2 + 8862 0.68 0.791257
Target:  5'- -aC-CGGCG-CGCUUCGUgucucugCGCUCAGCc -3'
miRNA:   3'- caGuGUCGCaGUGAAGUA-------GUGAGUCG- -5'
8109 3' -50 NC_001978.2 + 33316 0.68 0.802607
Target:  5'- -gUACAGC-UCACUUgcCAUCACUCccgaacGGCg -3'
miRNA:   3'- caGUGUCGcAGUGAA--GUAGUGAG------UCG- -5'
8109 3' -50 NC_001978.2 + 40485 0.68 0.812713
Target:  5'- aUCACAGCGUCACccgggCGcccuUCGCUguGa -3'
miRNA:   3'- cAGUGUCGCAGUGaa---GU----AGUGAguCg -5'
8109 3' -50 NC_001978.2 + 16479 0.68 0.812713
Target:  5'- -cCGCAGCGUCuuuacgugacggGCUUCAacaUCACggAGCc -3'
miRNA:   3'- caGUGUCGCAG------------UGAAGU---AGUGagUCG- -5'
8109 3' -50 NC_001978.2 + 24968 0.68 0.812713
Target:  5'- -gCGCAGCGUCGgCgccccccUUGCUCAGCg -3'
miRNA:   3'- caGUGUCGCAGU-Gaagu---AGUGAGUCG- -5'
8109 3' -50 NC_001978.2 + 24572 0.68 0.822604
Target:  5'- cGUCgGCGGCGUCAUggUCggCAUaugugUCGGCg -3'
miRNA:   3'- -CAG-UGUCGCAGUGa-AGuaGUG-----AGUCG- -5'
8109 3' -50 NC_001978.2 + 9636 0.67 0.832268
Target:  5'- -aCGCcGCGuUCACUUCGUCGC-CAcccGCg -3'
miRNA:   3'- caGUGuCGC-AGUGAAGUAGUGaGU---CG- -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.