miRNA display CGI


Results 1 - 20 of 26 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
17051 3' -54.5 NC_004333.2 + 27398 0.66 0.751742
Target:  5'- gGCUUggaGCGCaGG-CGUGUCGACgUucaGGCg -3'
miRNA:   3'- -CGAA---UGUGaCCaGCACGGCUGgA---CCG- -5'
17051 3' -54.5 NC_004333.2 + 15315 0.66 0.751742
Target:  5'- cGCUUGCcgucgaGCaGGUCGUcgaugaacuuGUCGAUCUcGGCg -3'
miRNA:   3'- -CGAAUG------UGaCCAGCA----------CGGCUGGA-CCG- -5'
17051 3' -54.5 NC_004333.2 + 21169 0.66 0.751742
Target:  5'- cGCUUcGCGCUGc-CGcagGCCGGCCUgcucggGGCa -3'
miRNA:   3'- -CGAA-UGUGACcaGCa--CGGCUGGA------CCG- -5'
17051 3' -54.5 NC_004333.2 + 17669 0.66 0.741217
Target:  5'- aGCUggccgGCAgcCUGGUCG-GCCGcacGCUcgGGCu -3'
miRNA:   3'- -CGAa----UGU--GACCAGCaCGGC---UGGa-CCG- -5'
17051 3' -54.5 NC_004333.2 + 1121 0.66 0.73058
Target:  5'- ---cGCGCgaaGUCgGUGCCGugCUGcGCg -3'
miRNA:   3'- cgaaUGUGac-CAG-CACGGCugGAC-CG- -5'
17051 3' -54.5 NC_004333.2 + 9269 0.66 0.719842
Target:  5'- uGCUUG--UUGGcCGUGCCGAUCaGcGCg -3'
miRNA:   3'- -CGAAUguGACCaGCACGGCUGGaC-CG- -5'
17051 3' -54.5 NC_004333.2 + 9288 0.66 0.709015
Target:  5'- gGCUU-CAC-GGUCGgguuuucaccGCCGGCCgGGUu -3'
miRNA:   3'- -CGAAuGUGaCCAGCa---------CGGCUGGaCCG- -5'
17051 3' -54.5 NC_004333.2 + 11992 0.67 0.687141
Target:  5'- gGCUUGCGCccaaucUCGUGCuCGugCaGGCg -3'
miRNA:   3'- -CGAAUGUGacc---AGCACG-GCugGaCCG- -5'
17051 3' -54.5 NC_004333.2 + 19152 0.67 0.665052
Target:  5'- uGCUcGCGCUGGuuaUCGUGCUaGCCgcgcGCg -3'
miRNA:   3'- -CGAaUGUGACC---AGCACGGcUGGac--CG- -5'
17051 3' -54.5 NC_004333.2 + 37681 0.67 0.665052
Target:  5'- ----cCGCUcGUCG-GCCGGCCcGGCg -3'
miRNA:   3'- cgaauGUGAcCAGCaCGGCUGGaCCG- -5'
17051 3' -54.5 NC_004333.2 + 45402 0.68 0.631709
Target:  5'- cGCUU-CAC-GGUCGUGacgaacgCGACC-GGCa -3'
miRNA:   3'- -CGAAuGUGaCCAGCACg------GCUGGaCCG- -5'
17051 3' -54.5 NC_004333.2 + 48058 0.68 0.620582
Target:  5'- uGCUcaUGCGCgauGUCGUgcugcucgguGCCGACgaGGCg -3'
miRNA:   3'- -CGA--AUGUGac-CAGCA----------CGGCUGgaCCG- -5'
17051 3' -54.5 NC_004333.2 + 17561 0.68 0.598368
Target:  5'- cGCUgcUGCACgaccUGG-CGU-CCGGCCUGGg -3'
miRNA:   3'- -CGA--AUGUG----ACCaGCAcGGCUGGACCg -5'
17051 3' -54.5 NC_004333.2 + 35782 0.68 0.5873
Target:  5'- gGCggcgACACUGG-CGcGCCGGgCggGGCg -3'
miRNA:   3'- -CGaa--UGUGACCaGCaCGGCUgGa-CCG- -5'
17051 3' -54.5 NC_004333.2 + 45876 0.68 0.57627
Target:  5'- ---aACGCgGG-CGUGCCGGCCacGGUa -3'
miRNA:   3'- cgaaUGUGaCCaGCACGGCUGGa-CCG- -5'
17051 3' -54.5 NC_004333.2 + 20329 0.69 0.554361
Target:  5'- gGCUUGC-C-GGcCGUGCCGACg-GGUa -3'
miRNA:   3'- -CGAAUGuGaCCaGCACGGCUGgaCCG- -5'
17051 3' -54.5 NC_004333.2 + 2780 0.69 0.532704
Target:  5'- --gUGC-CaGGUCugcggccuUGCCGACCUGGCg -3'
miRNA:   3'- cgaAUGuGaCCAGc-------ACGGCUGGACCG- -5'
17051 3' -54.5 NC_004333.2 + 39684 0.69 0.521989
Target:  5'- cGCUU-C-CUGGUCG-GCCuGCCUGcGCc -3'
miRNA:   3'- -CGAAuGuGACCAGCaCGGcUGGAC-CG- -5'
17051 3' -54.5 NC_004333.2 + 45389 0.7 0.480035
Target:  5'- ---aGCGCcaGGUCGgcaagGCCgcaGACCUGGCa -3'
miRNA:   3'- cgaaUGUGa-CCAGCa----CGG---CUGGACCG- -5'
17051 3' -54.5 NC_004333.2 + 11321 0.7 0.480035
Target:  5'- -gUUGCACUGGUCGcGCgCGAUgaaGGCg -3'
miRNA:   3'- cgAAUGUGACCAGCaCG-GCUGga-CCG- -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.