miRNA display CGI


Results 1 - 20 of 20 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
13259 5' -56.5 NC_003401.1 + 20865 0.66 0.873638
Target:  5'- cCGCggaaACGGAcGCGGGGUccuccgcagcugaaGCAGCAgGGg -3'
miRNA:   3'- -GCG----UGCUUaUGCCCCG--------------CGUCGUaCCa -5'
13259 5' -56.5 NC_003401.1 + 106080 0.66 0.868449
Target:  5'- gGCACGggUuuGCGGGGUGCGuUAUa-- -3'
miRNA:   3'- gCGUGCuuA--UGCCCCGCGUcGUAcca -5'
13259 5' -56.5 NC_003401.1 + 27763 0.66 0.868449
Target:  5'- gGUACGGcUGUGGGGCGUGGagAUGGg -3'
miRNA:   3'- gCGUGCUuAUGCCCCGCGUCg-UACCa -5'
13259 5' -56.5 NC_003401.1 + 132561 0.66 0.860853
Target:  5'- gCGCGCGGcucccgAUGCcGGGCGgccgccgccCGGCAUGGc -3'
miRNA:   3'- -GCGUGCU------UAUGcCCCGC---------GUCGUACCa -5'
13259 5' -56.5 NC_003401.1 + 109209 0.66 0.856194
Target:  5'- uGCACGAuauCGGccggucguuguuagaGGCGUAcGCGUGGg -3'
miRNA:   3'- gCGUGCUuauGCC---------------CCGCGU-CGUACCa -5'
13259 5' -56.5 NC_003401.1 + 72527 0.66 0.853047
Target:  5'- aGCGCGG--ACGGGGCGCu-CA-GGa -3'
miRNA:   3'- gCGUGCUuaUGCCCCGCGucGUaCCa -5'
13259 5' -56.5 NC_003401.1 + 132674 0.66 0.845038
Target:  5'- gGCcCGGGgggcguCGGGGCGCGGCGccgccGGg -3'
miRNA:   3'- gCGuGCUUau----GCCCCGCGUCGUa----CCa -5'
13259 5' -56.5 NC_003401.1 + 107775 0.66 0.836831
Target:  5'- gGCGCGGAccCGGGaGCGUGGCGucuucUGGc -3'
miRNA:   3'- gCGUGCUUauGCCC-CGCGUCGU-----ACCa -5'
13259 5' -56.5 NC_003401.1 + 20757 0.67 0.819858
Target:  5'- gGCGCGGccccgcGUugGGGGUugGCGGCcgGuGUg -3'
miRNA:   3'- gCGUGCU------UAugCCCCG--CGUCGuaC-CA- -5'
13259 5' -56.5 NC_003401.1 + 132529 0.67 0.819858
Target:  5'- gCGCGCGGc-GCGGGGCG--GCcgGGg -3'
miRNA:   3'- -GCGUGCUuaUGCCCCGCguCGuaCCa -5'
13259 5' -56.5 NC_003401.1 + 87982 0.67 0.805777
Target:  5'- gGCACGAgugucuguggcgggcGUGCGGGGaUGCGGCccaGUGa- -3'
miRNA:   3'- gCGUGCU---------------UAUGCCCC-GCGUCG---UACca -5'
13259 5' -56.5 NC_003401.1 + 122114 0.68 0.774538
Target:  5'- gGCGCGGc-AgGGGGCGUGGCAcGGc -3'
miRNA:   3'- gCGUGCUuaUgCCCCGCGUCGUaCCa -5'
13259 5' -56.5 NC_003401.1 + 12906 0.68 0.744743
Target:  5'- gCGguUGAgguugugGUGgGGGGUGCuGGCGUGGUg -3'
miRNA:   3'- -GCguGCU-------UAUgCCCCGCG-UCGUACCA- -5'
13259 5' -56.5 NC_003401.1 + 132789 0.68 0.7359
Target:  5'- gGCGCGGAgaccaccuuuCGGGGCG--GCGUGGg -3'
miRNA:   3'- gCGUGCUUau--------GCCCCGCguCGUACCa -5'
13259 5' -56.5 NC_003401.1 + 132439 0.69 0.715991
Target:  5'- gCGCGCGGGccCGGGGgGCGcGCggGGg -3'
miRNA:   3'- -GCGUGCUUauGCCCCgCGU-CGuaCCa -5'
13259 5' -56.5 NC_003401.1 + 52807 0.7 0.665109
Target:  5'- uGCGgGAAUAuCaGGGCGCGaCAUGGUa -3'
miRNA:   3'- gCGUgCUUAU-GcCCCGCGUcGUACCA- -5'
13259 5' -56.5 NC_003401.1 + 121933 0.73 0.492814
Target:  5'- gGCGCGggUGCGGcggcuGGCGCGGcCGUGc- -3'
miRNA:   3'- gCGUGCuuAUGCC-----CCGCGUC-GUACca -5'
13259 5' -56.5 NC_003401.1 + 117937 0.79 0.213635
Target:  5'- gCGCAUGAGggcgGCGGGGuCGCGGCGaGGUc -3'
miRNA:   3'- -GCGUGCUUa---UGCCCC-GCGUCGUaCCA- -5'
13259 5' -56.5 NC_003401.1 + 8859 0.8 0.198226
Target:  5'- -cCugGggUacuucGCGGGGCGCGGCGUGGa -3'
miRNA:   3'- gcGugCuuA-----UGCCCCGCGUCGUACCa -5'
13259 5' -56.5 NC_003401.1 + 116546 1.07 0.002928
Target:  5'- cCGCACGAAUACGGGGCGCAGCAUGGUc -3'
miRNA:   3'- -GCGUGCUUAUGCCCCGCGUCGUACCA- -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.