miRNA display CGI


Results 1 - 20 of 52 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
27407 3' -53.2 NC_005869.1 + 2256 0.78 0.140362
Target:  5'- gCCCAGcacGCCaAGGugGAGUUGCAGCCg -3'
miRNA:   3'- -GGGUCuuuCGGgUCC--UUCAACGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 9888 0.66 0.701966
Target:  5'- uCCCGGucGGCguCCAGGuGGGUgcgaccGUAGCCc -3'
miRNA:   3'- -GGGUCuuUCG--GGUCC-UUCAa-----CGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 11801 0.66 0.690561
Target:  5'- cCCUGGAcGAGCCUuGGGAGcaggcucUGCGGCg -3'
miRNA:   3'- -GGGUCU-UUCGGGuCCUUCa------ACGUCGg -5'
27407 3' -53.2 NC_005869.1 + 12943 0.66 0.690561
Target:  5'- uCCCGGAgcAGGaCgAGGggGaggaGCGGCCc -3'
miRNA:   3'- -GGGUCU--UUCgGgUCCuuCaa--CGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 5298 0.66 0.677943
Target:  5'- gCCGGAGGGCCCgcgugAGGGuggucucggugacGGUgaaggggGCGGUCu -3'
miRNA:   3'- gGGUCUUUCGGG-----UCCU-------------UCAa------CGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 7768 0.66 0.667576
Target:  5'- gCCGcAGGGCCUu-GAAGgcGCGGCCg -3'
miRNA:   3'- gGGUcUUUCGGGucCUUCaaCGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 26759 0.67 0.644443
Target:  5'- uUCCAGcGAuCuCCAGGAAGgccGCAGCa -3'
miRNA:   3'- -GGGUCuUUcG-GGUCCUUCaa-CGUCGg -5'
27407 3' -53.2 NC_005869.1 + 27651 0.67 0.632852
Target:  5'- cUCCGGAccGCCCGGGAccuaccccgaccAGUU-CAucGCCa -3'
miRNA:   3'- -GGGUCUuuCGGGUCCU------------UCAAcGU--CGG- -5'
27407 3' -53.2 NC_005869.1 + 17332 0.67 0.614309
Target:  5'- uCCCAGggGGUgCAGGuGGcuuuccaaccagcgUGCuAGCCc -3'
miRNA:   3'- -GGGUCuuUCGgGUCCuUCa-------------ACG-UCGG- -5'
27407 3' -53.2 NC_005869.1 + 30896 0.68 0.586592
Target:  5'- cCCCAGAGuGCCUAGaGAacccuGGccGuCAGCCg -3'
miRNA:   3'- -GGGUCUUuCGGGUC-CU-----UCaaC-GUCGG- -5'
27407 3' -53.2 NC_005869.1 + 9751 0.74 0.261059
Target:  5'- gCCGGAuGGCgCgCAGGAGGgugaggucuUUGCGGCCg -3'
miRNA:   3'- gGGUCUuUCG-G-GUCCUUC---------AACGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 33830 0.73 0.298244
Target:  5'- gCCCAGAAGuCCCGGGAAuucccGCcAGCCg -3'
miRNA:   3'- -GGGUCUUUcGGGUCCUUcaa--CG-UCGG- -5'
27407 3' -53.2 NC_005869.1 + 6785 0.72 0.356985
Target:  5'- cCCgCAGGAGGCCgAuGAAGUUgggguagcaGCGGCCg -3'
miRNA:   3'- -GG-GUCUUUCGGgUcCUUCAA---------CGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 8362 0.71 0.366012
Target:  5'- gUCGGggGGCgggcgCAGGAGG-UGCAGCUg -3'
miRNA:   3'- gGGUCuuUCGg----GUCCUUCaACGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 7542 0.7 0.443674
Target:  5'- gCCAGGAcgaucucaucgaAGCCCGaGAuGUUGUGGCCc -3'
miRNA:   3'- gGGUCUU------------UCGGGUcCUuCAACGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 6859 0.69 0.485819
Target:  5'- gUgGGAGGGCgCgAGGAGGUU-CGGCCg -3'
miRNA:   3'- gGgUCUUUCG-GgUCCUUCAAcGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 7644 0.69 0.507596
Target:  5'- gCCAGggGGUCCucGggGUcguccgGCAGgCCg -3'
miRNA:   3'- gGGUCuuUCGGGucCuuCAa-----CGUC-GG- -5'
27407 3' -53.2 NC_005869.1 + 31513 1.15 0.000314
Target:  5'- gCCCAGAAAGCCCAGGAAGUUGCAGCCg -3'
miRNA:   3'- -GGGUCUUUCGGGUCCUUCAACGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 12343 0.66 0.701966
Target:  5'- gCgUAGAGgagguucuGGCCCAGGucGGUgagGguGCCc -3'
miRNA:   3'- -GgGUCUU--------UCGGGUCCu-UCAa--CguCGG- -5'
27407 3' -53.2 NC_005869.1 + 19390 0.66 0.701966
Target:  5'- gUCCGGGGAGaCCAgcagcgucuGGGAGgcGguGCCc -3'
miRNA:   3'- -GGGUCUUUCgGGU---------CCUUCaaCguCGG- -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.