miRNA display CGI


Results 1 - 16 of 16 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
11416 3' -43.3 NC_003085.1 + 7913 0.66 0.999682
Target:  5'- gGCGAgCGCGuCCUgucgGcgUGCAccaacucGUUGCg -3'
miRNA:   3'- -CGUUaGCGUuGGAa---CuaACGU-------UAACG- -5'
11416 3' -43.3 NC_003085.1 + 27003 0.66 0.999597
Target:  5'- cGCGAguggUGCAcggGCCUUGGUgUGCc--UGCg -3'
miRNA:   3'- -CGUUa---GCGU---UGGAACUA-ACGuuaACG- -5'
11416 3' -43.3 NC_003085.1 + 25166 0.66 0.999597
Target:  5'- gGCGAcCGUGGCCU-GGUgGCGGUgGCg -3'
miRNA:   3'- -CGUUaGCGUUGGAaCUAaCGUUAaCG- -5'
11416 3' -43.3 NC_003085.1 + 33694 0.67 0.999137
Target:  5'- cGCGuugaCGCGcucaaacGCCUcGAUUGCAGcgGCa -3'
miRNA:   3'- -CGUua--GCGU-------UGGAaCUAACGUUaaCG- -5'
11416 3' -43.3 NC_003085.1 + 33 0.67 0.998672
Target:  5'- aCAGUaCGCAcauGCCUUGcuaucUGCAAcUUGCa -3'
miRNA:   3'- cGUUA-GCGU---UGGAACua---ACGUU-AACG- -5'
11416 3' -43.3 NC_003085.1 + 9123 0.68 0.99797
Target:  5'- uGCuGUCGCGACCUcucUGGgagcgGCAccugGCg -3'
miRNA:   3'- -CGuUAGCGUUGGA---ACUaa---CGUuaa-CG- -5'
11416 3' -43.3 NC_003085.1 + 1549 0.68 0.997515
Target:  5'- uGCuGUCGCGagGCCgUGcgcGUcgccUGCAGUUGCg -3'
miRNA:   3'- -CGuUAGCGU--UGGaAC---UA----ACGUUAACG- -5'
11416 3' -43.3 NC_003085.1 + 606 0.68 0.996979
Target:  5'- uGCAagcccGUCGCGGCCUacggcgGGUUGUgc-UGCg -3'
miRNA:   3'- -CGU-----UAGCGUUGGAa-----CUAACGuuaACG- -5'
11416 3' -43.3 NC_003085.1 + 12221 0.69 0.995618
Target:  5'- uGCGA-CGCcuGCCUUGAgcGCGGcgGCu -3'
miRNA:   3'- -CGUUaGCGu-UGGAACUaaCGUUaaCG- -5'
11416 3' -43.3 NC_003085.1 + 40554 0.69 0.991404
Target:  5'- gGCGucgaggCGCAagGCCUUGGUgGCGG-UGCg -3'
miRNA:   3'- -CGUua----GCGU--UGGAACUAaCGUUaACG- -5'
11416 3' -43.3 NC_003085.1 + 38229 0.7 0.989963
Target:  5'- cGCGGUagUGCAccACCUUGGgcUGaCGGUUGCa -3'
miRNA:   3'- -CGUUA--GCGU--UGGAACUa-AC-GUUAACG- -5'
11416 3' -43.3 NC_003085.1 + 5149 0.7 0.984489
Target:  5'- gGCAuccauGUCGCAacACCUcGcg-GCGAUUGCu -3'
miRNA:   3'- -CGU-----UAGCGU--UGGAaCuaaCGUUAACG- -5'
11416 3' -43.3 NC_003085.1 + 10926 0.73 0.944646
Target:  5'- aGCAAggGCuuGCCggGGUUGguGUUGCg -3'
miRNA:   3'- -CGUUagCGu-UGGaaCUAACguUAACG- -5'
11416 3' -43.3 NC_003085.1 + 15334 0.75 0.899249
Target:  5'- cGCGAUUGCAACCauacUGGUaacUGCA--UGCg -3'
miRNA:   3'- -CGUUAGCGUUGGa---ACUA---ACGUuaACG- -5'
11416 3' -43.3 NC_003085.1 + 4579 0.92 0.163984
Target:  5'- uGCAAUUGCAAUCaaGGUUGCGAUUGCg -3'
miRNA:   3'- -CGUUAGCGUUGGaaCUAACGUUAACG- -5'
11416 3' -43.3 NC_003085.1 + 44881 1.19 0.003962
Target:  5'- cGCAAUCGCAACCUUGAUUGCAAUUGCa -3'
miRNA:   3'- -CGUUAGCGUUGGAACUAACGUUAACG- -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.