miRNA display CGI


Results 1 - 20 of 31 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
26534 3' -60.3 NC_005357.1 + 802 0.73 0.133947
Target:  5'- uUCCGGcgacgcGCCGCGCCCA-GCCCUUgcCGAa -3'
miRNA:   3'- cGGGCU------CGGCGUGGGUaCGGGAA--GCU- -5'
26534 3' -60.3 NC_005357.1 + 24779 0.66 0.373499
Target:  5'- uGCCaCGGGUCGUcCUCgAUGCCCgcgUUGAa -3'
miRNA:   3'- -CGG-GCUCGGCGuGGG-UACGGGa--AGCU- -5'
26534 3' -60.3 NC_005357.1 + 11837 0.66 0.373499
Target:  5'- -aCCG-GCCGCGCCgCGguugGCCUgggCGAa -3'
miRNA:   3'- cgGGCuCGGCGUGG-GUa---CGGGaa-GCU- -5'
26534 3' -60.3 NC_005357.1 + 12730 0.66 0.380451
Target:  5'- gGCCCGuuggugcuggguGCCGCGCCCAgacGCUUggCGc -3'
miRNA:   3'- -CGGGCu-----------CGGCGUGGGUa--CGGGaaGCu -5'
26534 3' -60.3 NC_005357.1 + 3714 0.66 0.382203
Target:  5'- cGCgCucGUgGCGCCCGUGCCgUUCa- -3'
miRNA:   3'- -CGgGcuCGgCGUGGGUACGGgAAGcu -5'
26534 3' -60.3 NC_005357.1 + 6404 0.66 0.382203
Target:  5'- gGCCCGguguAGUCGCgGCCCAUGUCgUUgGc -3'
miRNA:   3'- -CGGGC----UCGGCG-UGGGUACGGgAAgCu -5'
26534 3' -60.3 NC_005357.1 + 31182 0.66 0.40001
Target:  5'- aGCaCGGGCCGCGCaCGuucUGCCUgacggUCGAg -3'
miRNA:   3'- -CGgGCUCGGCGUGgGU---ACGGGa----AGCU- -5'
26534 3' -60.3 NC_005357.1 + 24426 0.66 0.40001
Target:  5'- gGCCCGAuuugucgguGCCGCGCgCG-GCCUcggCGAc -3'
miRNA:   3'- -CGGGCU---------CGGCGUGgGUaCGGGaa-GCU- -5'
26534 3' -60.3 NC_005357.1 + 32504 0.66 0.40911
Target:  5'- aGgCCGAGaacuCCGCGCCCGUGCaggCUggUGAu -3'
miRNA:   3'- -CgGGCUC----GGCGUGGGUACGg--GAa-GCU- -5'
26534 3' -60.3 NC_005357.1 + 26046 0.66 0.356501
Target:  5'- aGCCCGcgcggcGGgCGCGCuCCAUGCgCUcggCGAa -3'
miRNA:   3'- -CGGGC------UCgGCGUG-GGUACGgGAa--GCU- -5'
26534 3' -60.3 NC_005357.1 + 32623 0.67 0.332037
Target:  5'- gGCCgCGAcGCCGCGgUCGcUGUCCUgUCGAa -3'
miRNA:   3'- -CGG-GCU-CGGCGUgGGU-ACGGGA-AGCU- -5'
26534 3' -60.3 NC_005357.1 + 37861 0.71 0.185223
Target:  5'- cGCaCCGAGCaGCGCCUcgGCgaCUUCGGc -3'
miRNA:   3'- -CG-GGCUCGgCGUGGGuaCGg-GAAGCU- -5'
26534 3' -60.3 NC_005357.1 + 14703 0.7 0.216882
Target:  5'- gGCCUGcAGuuGCGCcuCCAUGCCCUgCGc -3'
miRNA:   3'- -CGGGC-UCggCGUG--GGUACGGGAaGCu -5'
26534 3' -60.3 NC_005357.1 + 39985 0.7 0.216882
Target:  5'- cGCCUGGGCCGCAgUUUcgGCgCCUUCa- -3'
miRNA:   3'- -CGGGCUCGGCGU-GGGuaCG-GGAAGcu -5'
26534 3' -60.3 NC_005357.1 + 12919 0.69 0.253061
Target:  5'- cGCUCG-GCCGCGCCCAUaacgcuagucaGCUUcUCGGg -3'
miRNA:   3'- -CGGGCuCGGCGUGGGUA-----------CGGGaAGCU- -5'
26534 3' -60.3 NC_005357.1 + 11083 0.67 0.30883
Target:  5'- uGUCCGGGUCGCGCgCGaGCaCCUugUCGGc -3'
miRNA:   3'- -CGGGCUCGGCGUGgGUaCG-GGA--AGCU- -5'
26534 3' -60.3 NC_005357.1 + 18858 0.67 0.324162
Target:  5'- aGgCCGGGCg--GCCCAUGCCCacgUUCGGg -3'
miRNA:   3'- -CgGGCUCGgcgUGGGUACGGG---AAGCU- -5'
26534 3' -60.3 NC_005357.1 + 32113 0.67 0.324162
Target:  5'- cGCCCuGGCCGCugCCGaccucgacGCCCc-CGAa -3'
miRNA:   3'- -CGGGcUCGGCGugGGUa-------CGGGaaGCU- -5'
26534 3' -60.3 NC_005357.1 + 39699 0.67 0.332037
Target:  5'- aGCgCCGGGCCGCGCUCAagcGUCCg---- -3'
miRNA:   3'- -CG-GGCUCGGCGUGGGUa--CGGGaagcu -5'
26534 3' -60.3 NC_005357.1 + 14351 0.66 0.40911
Target:  5'- --aCGAcGCCGCGgCCAccUGCCCgcugUUCGAg -3'
miRNA:   3'- cggGCU-CGGCGUgGGU--ACGGG----AAGCU- -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.