miRNA display CGI


Results 1 - 20 of 24 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
23757 5' -56 NC_005261.1 + 18663 0.66 0.903127
Target:  5'- uCGGgcgGGCCCcagcggGCGAAGgggccCCAGGcUGUUg -3'
miRNA:   3'- -GCCa--CCGGG------CGCUUCa----GGUUCuACAG- -5'
23757 5' -56 NC_005261.1 + 29428 0.66 0.890003
Target:  5'- gCGG-GGCCCGCGGccguGUUCGugccggAGAUGg- -3'
miRNA:   3'- -GCCaCCGGGCGCUu---CAGGU------UCUACag -5'
23757 5' -56 NC_005261.1 + 88718 0.66 0.890003
Target:  5'- --cUGGCCUGCGggGUgCGcGAUGa- -3'
miRNA:   3'- gccACCGGGCGCuuCAgGUuCUACag -5'
23757 5' -56 NC_005261.1 + 23929 0.66 0.883095
Target:  5'- gGGUGGgcucacCUCGCGGcgGGUUCGGGGUcGUCg -3'
miRNA:   3'- gCCACC------GGGCGCU--UCAGGUUCUA-CAG- -5'
23757 5' -56 NC_005261.1 + 18222 0.66 0.875962
Target:  5'- cCGGUccaGCCCGCaGggGUauuuguGGAUGUCg -3'
miRNA:   3'- -GCCAc--CGGGCG-CuuCAggu---UCUACAG- -5'
23757 5' -56 NC_005261.1 + 34285 0.66 0.875962
Target:  5'- aCGGcGGCCgGCGggGacgCCGGGAg--- -3'
miRNA:   3'- -GCCaCCGGgCGCuuCa--GGUUCUacag -5'
23757 5' -56 NC_005261.1 + 12747 0.67 0.86104
Target:  5'- uGGgcgGGCCCgGCGAGGUCguAGgcGg- -3'
miRNA:   3'- gCCa--CCGGG-CGCUUCAGguUCuaCag -5'
23757 5' -56 NC_005261.1 + 54384 0.67 0.86104
Target:  5'- uCGGgGcGCCCGCGAAGgCCGugccgguuaaGGAaGUCg -3'
miRNA:   3'- -GCCaC-CGGGCGCUUCaGGU----------UCUaCAG- -5'
23757 5' -56 NC_005261.1 + 13137 0.67 0.848499
Target:  5'- gCGuGUGGUCgGUGAcggcgcgcaccaggcGGUCCGAGGUGa- -3'
miRNA:   3'- -GC-CACCGGgCGCU---------------UCAGGUUCUACag -5'
23757 5' -56 NC_005261.1 + 64510 0.67 0.837108
Target:  5'- uCGG-GGCCCGCGGGcggcuccucGUCgGGGGgcagGUCc -3'
miRNA:   3'- -GCCaCCGGGCGCUU---------CAGgUUCUa---CAG- -5'
23757 5' -56 NC_005261.1 + 23729 0.67 0.828743
Target:  5'- gGGUGGCCgCGcCGAGgcgcGUCCGGGAg--- -3'
miRNA:   3'- gCCACCGG-GC-GCUU----CAGGUUCUacag -5'
23757 5' -56 NC_005261.1 + 57417 0.67 0.828743
Target:  5'- gCGGccGGCgCCGCG-AGcCCAGGAUG-Cg -3'
miRNA:   3'- -GCCa-CCG-GGCGCuUCaGGUUCUACaG- -5'
23757 5' -56 NC_005261.1 + 75933 0.68 0.81148
Target:  5'- -cGUGGCCCGCGuguacGAGgccugccCCGAGGUGg- -3'
miRNA:   3'- gcCACCGGGCGC-----UUCa------GGUUCUACag -5'
23757 5' -56 NC_005261.1 + 118902 0.68 0.793559
Target:  5'- uGGUGGCCUGCGucugGGUCCGGc----- -3'
miRNA:   3'- gCCACCGGGCGCu---UCAGGUUcuacag -5'
23757 5' -56 NC_005261.1 + 123284 0.68 0.784373
Target:  5'- gGGUGGUCCGCcagcgccUCCGcGAUGUCc -3'
miRNA:   3'- gCCACCGGGCGcuuc---AGGUuCUACAG- -5'
23757 5' -56 NC_005261.1 + 1603 0.69 0.750223
Target:  5'- gCGGUGGCuggccgccucgcccuCCGCGAAGUCCGGc----- -3'
miRNA:   3'- -GCCACCG---------------GGCGCUUCAGGUUcuacag -5'
23757 5' -56 NC_005261.1 + 33494 0.69 0.746337
Target:  5'- gCGG-GGCCCGCGAGcaCCAGGGg--- -3'
miRNA:   3'- -GCCaCCGGGCGCUUcaGGUUCUacag -5'
23757 5' -56 NC_005261.1 + 46937 0.69 0.746337
Target:  5'- uGGUgcucacgcGGCCCGCGGgccAGUCCGcGccGUCg -3'
miRNA:   3'- gCCA--------CCGGGCGCU---UCAGGUuCuaCAG- -5'
23757 5' -56 NC_005261.1 + 12907 0.7 0.675214
Target:  5'- uGGUguacaccGGCCCGaaGggGUUgAGGAUGUCg -3'
miRNA:   3'- gCCA-------CCGGGCg-CuuCAGgUUCUACAG- -5'
23757 5' -56 NC_005261.1 + 24186 0.7 0.666003
Target:  5'- gGGUcGUCgGCGAGGcUCCAGGAUcGUCg -3'
miRNA:   3'- gCCAcCGGgCGCUUC-AGGUUCUA-CAG- -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.