miRNA display CGI


Results 1 - 13 of 13 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
12655 3' -54.2 NC_003345.1 + 17766 0.66 0.843296
Target:  5'- uGuuGGCCGccGUGAGGUggUCGUGGGa -3'
miRNA:   3'- uCuuCCGGCu-CACUUCGuuGGCGUCU- -5'
12655 3' -54.2 NC_003345.1 + 56712 0.66 0.843296
Target:  5'- cGAcucAGGCCGAGcuUGAuGCucaCGCAGGa -3'
miRNA:   3'- uCU---UCCGGCUC--ACUuCGuugGCGUCU- -5'
12655 3' -54.2 NC_003345.1 + 67209 0.66 0.843296
Target:  5'- aAGAcaAGGCCGAGgaaGAAGCGcCCGa--- -3'
miRNA:   3'- -UCU--UCCGGCUCa--CUUCGUuGGCgucu -5'
12655 3' -54.2 NC_003345.1 + 45602 0.66 0.810889
Target:  5'- uGAAGGCCGAcGUGgcGCGguuaucaagggccugACCGUg-- -3'
miRNA:   3'- uCUUCCGGCU-CACuuCGU---------------UGGCGucu -5'
12655 3' -54.2 NC_003345.1 + 46455 0.66 0.806189
Target:  5'- cGGGAGGCCgugGAGUGGuacuucgAGacuGCCGUGGAc -3'
miRNA:   3'- -UCUUCCGG---CUCACU-------UCgu-UGGCGUCU- -5'
12655 3' -54.2 NC_003345.1 + 49789 0.67 0.787927
Target:  5'- cGGAAGGCuCGAaucucUGAAGCAAUCgaGCAGu -3'
miRNA:   3'- -UCUUCCG-GCUc----ACUUCGUUGG--CGUCu -5'
12655 3' -54.2 NC_003345.1 + 62853 0.67 0.778079
Target:  5'- cGGAGGCCagcguaggccccGAcGUGGAGUAGCCcuCAGAg -3'
miRNA:   3'- uCUUCCGG------------CU-CACUUCGUUGGc-GUCU- -5'
12655 3' -54.2 NC_003345.1 + 5278 0.67 0.757947
Target:  5'- uGAAGGCUGGauUGGAuGUAuucGCCGCAGAg -3'
miRNA:   3'- uCUUCCGGCUc-ACUU-CGU---UGGCGUCU- -5'
12655 3' -54.2 NC_003345.1 + 21336 0.68 0.737309
Target:  5'- cAGGAGGCUGuccGUGAgGGCGAcgacCCGguGAg -3'
miRNA:   3'- -UCUUCCGGCu--CACU-UCGUU----GGCguCU- -5'
12655 3' -54.2 NC_003345.1 + 30385 0.68 0.726827
Target:  5'- cGGuAGGCCGcucGggGCAuauccucuccGCCGCAGGa -3'
miRNA:   3'- -UCuUCCGGCucaCuuCGU----------UGGCGUCU- -5'
12655 3' -54.2 NC_003345.1 + 29790 0.7 0.586027
Target:  5'- aAGAAGcGcCCGAuaccGUGggGCGACCGCc-- -3'
miRNA:   3'- -UCUUC-C-GGCU----CACuuCGUUGGCGucu -5'
12655 3' -54.2 NC_003345.1 + 23301 0.72 0.510441
Target:  5'- cGAAGGCCGAGauucagaUGGAgaugcGCGACCGUGGu -3'
miRNA:   3'- uCUUCCGGCUC-------ACUU-----CGUUGGCGUCu -5'
12655 3' -54.2 NC_003345.1 + 59433 1.09 0.001773
Target:  5'- gAGAAGGCCGAGUGAAGCAACCGCAGAc -3'
miRNA:   3'- -UCUUCCGGCUCACUUCGUUGGCGUCU- -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.