miRNA display CGI


Results 1 - 20 of 36 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
27443 3' -54.3 NC_005869.1 + 443 0.66 0.662069
Target:  5'- gGCGGCCGccgcGGACc-UCUCAgcgCGAAGg- -3'
miRNA:   3'- -CGCCGGU----CCUGcuAGAGUa--GCUUCgg -5'
27443 3' -54.3 NC_005869.1 + 23044 0.66 0.662069
Target:  5'- aGCGGCaucagCAGGuGCG-UCUCcgCGuuGCCc -3'
miRNA:   3'- -CGCCG-----GUCC-UGCuAGAGuaGCuuCGG- -5'
27443 3' -54.3 NC_005869.1 + 27371 0.66 0.65186
Target:  5'- cGCGGCaggugcagguggguGGGCGGUUgcgUCAUCuGAGGCa -3'
miRNA:   3'- -CGCCGgu------------CCUGCUAG---AGUAG-CUUCGg -5'
27443 3' -54.3 NC_005869.1 + 14944 0.66 0.62799
Target:  5'- gGCgGGCgCAGGAgGAUCUgGUUcuccggGAAGCg -3'
miRNA:   3'- -CG-CCG-GUCCUgCUAGAgUAG------CUUCGg -5'
27443 3' -54.3 NC_005869.1 + 2115 0.66 0.62799
Target:  5'- -gGGCCGGcGGCGAUCUaaaccaGAuccGGCCc -3'
miRNA:   3'- cgCCGGUC-CUGCUAGAguag--CU---UCGG- -5'
27443 3' -54.3 NC_005869.1 + 18838 0.67 0.616623
Target:  5'- cGCGGCC-GGACGccgacgCAcaGGAGCCg -3'
miRNA:   3'- -CGCCGGuCCUGCuaga--GUagCUUCGG- -5'
27443 3' -54.3 NC_005869.1 + 5359 0.67 0.616623
Target:  5'- gGUGGCCAGGGuc--CUC-UUGAGGCUg -3'
miRNA:   3'- -CGCCGGUCCUgcuaGAGuAGCUUCGG- -5'
27443 3' -54.3 NC_005869.1 + 9088 0.67 0.605271
Target:  5'- aGCGGCgCAGGGucagCUCGUUGAugucGCCc -3'
miRNA:   3'- -CGCCG-GUCCUgcuaGAGUAGCUu---CGG- -5'
27443 3' -54.3 NC_005869.1 + 8106 0.67 0.605271
Target:  5'- aGCaGGUguGGGCGGUCUgGaaGAugcGGCCg -3'
miRNA:   3'- -CG-CCGguCCUGCUAGAgUagCU---UCGG- -5'
27443 3' -54.3 NC_005869.1 + 16219 0.67 0.605271
Target:  5'- cGCGGCCGGaccaccaaGCGcUCUUAUgaCGAGGUCg -3'
miRNA:   3'- -CGCCGGUCc-------UGCuAGAGUA--GCUUCGG- -5'
27443 3' -54.3 NC_005869.1 + 30235 0.67 0.605271
Target:  5'- cGUGGCgGGGACGGugaguUgUCcuUCGggGCa -3'
miRNA:   3'- -CGCCGgUCCUGCU-----AgAGu-AGCuuCGg -5'
27443 3' -54.3 NC_005869.1 + 22435 0.67 0.605271
Target:  5'- -gGGCU-GGACG-UCggCGUCGAagAGCCg -3'
miRNA:   3'- cgCCGGuCCUGCuAGa-GUAGCU--UCGG- -5'
27443 3' -54.3 NC_005869.1 + 21811 0.67 0.587163
Target:  5'- uGCGGCguGcaccagccgcaccgaGGCG---UCAUCGAGGCCg -3'
miRNA:   3'- -CGCCGguC---------------CUGCuagAGUAGCUUCGG- -5'
27443 3' -54.3 NC_005869.1 + 187 0.67 0.582651
Target:  5'- gGUGGagccCUGGGGCGGUcCUCcgCGggGCg -3'
miRNA:   3'- -CGCC----GGUCCUGCUA-GAGuaGCuuCGg -5'
27443 3' -54.3 NC_005869.1 + 13497 0.67 0.582651
Target:  5'- gGC-GCCAGGAcCGGUUcuuUCGcuUCGAAGCg -3'
miRNA:   3'- -CGcCGGUCCU-GCUAG---AGU--AGCUUCGg -5'
27443 3' -54.3 NC_005869.1 + 15843 0.67 0.582651
Target:  5'- aUGGCCAuGGcCGAgcgCGUCGguGCCg -3'
miRNA:   3'- cGCCGGU-CCuGCUagaGUAGCuuCGG- -5'
27443 3' -54.3 NC_005869.1 + 15412 0.67 0.580397
Target:  5'- gGCGGCgGGuggcgccGGCGAUCgCGUUGAccacgucGGCCa -3'
miRNA:   3'- -CGCCGgUC-------CUGCUAGaGUAGCU-------UCGG- -5'
27443 3' -54.3 NC_005869.1 + 2475 0.67 0.571402
Target:  5'- cCGGcCCGGGGUGGUCUgAUUuuAGCCa -3'
miRNA:   3'- cGCC-GGUCCUGCUAGAgUAGcuUCGG- -5'
27443 3' -54.3 NC_005869.1 + 27833 0.67 0.560206
Target:  5'- aGCGGUUAGGgcacuggcgGCGGUgCUgGUCGAggagcucccgcAGCCg -3'
miRNA:   3'- -CGCCGGUCC---------UGCUA-GAgUAGCU-----------UCGG- -5'
27443 3' -54.3 NC_005869.1 + 27321 0.68 0.527019
Target:  5'- gGCgGGCCAGGACGGgggauUUUgGaCGggGCg -3'
miRNA:   3'- -CG-CCGGUCCUGCU-----AGAgUaGCuuCGg -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.