miRNA display CGI


Results 1 - 20 of 71 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
29620 3' -55.3 NC_006151.1 + 8526 0.83 0.177991
Target:  5'- uGUGcgCGGGGAGAgugugaUGUGGGGGGuGUGCg -3'
miRNA:   3'- -CGCuaGCUCCUCU------ACACCUCCC-CACG- -5'
29620 3' -55.3 NC_006151.1 + 41185 0.82 0.196722
Target:  5'- gGUGGUCGAGGGGG-GUGGGGGGGg-- -3'
miRNA:   3'- -CGCUAGCUCCUCUaCACCUCCCCacg -5'
29620 3' -55.3 NC_006151.1 + 44463 0.77 0.363173
Target:  5'- cGCGAUgGGGGgugaGGGUGgacgGGGGGGGUGg -3'
miRNA:   3'- -CGCUAgCUCC----UCUACa---CCUCCCCACg -5'
29620 3' -55.3 NC_006151.1 + 27471 0.76 0.448911
Target:  5'- gGCGGUCGAGcGGGggGUcGGcGGGGUGg -3'
miRNA:   3'- -CGCUAGCUC-CUCuaCA-CCuCCCCACg -5'
29620 3' -55.3 NC_006151.1 + 11727 0.75 0.458089
Target:  5'- -aGAggGGGGAGcgGgggugagggGGAGGGGUGCg -3'
miRNA:   3'- cgCUagCUCCUCuaCa--------CCUCCCCACG- -5'
29620 3' -55.3 NC_006151.1 + 41301 0.75 0.486207
Target:  5'- uGUGcgUGAGGGGggGggGGGGGGGUGg -3'
miRNA:   3'- -CGCuaGCUCCUCuaCa-CCUCCCCACg -5'
29620 3' -55.3 NC_006151.1 + 10383 0.74 0.515117
Target:  5'- gGgGGUCGGGGGGAaGggagGGGGGGGgagaGCg -3'
miRNA:   3'- -CgCUAGCUCCUCUaCa---CCUCCCCa---CG- -5'
29620 3' -55.3 NC_006151.1 + 44841 0.74 0.52491
Target:  5'- cCGGggCGAGcGGGGUcGUGGAGGGGggGCg -3'
miRNA:   3'- cGCUa-GCUC-CUCUA-CACCUCCCCa-CG- -5'
29620 3' -55.3 NC_006151.1 + 45991 0.73 0.584938
Target:  5'- aGCGAcgcuUCGuuuguGGAGAcgcccGUGGAGGGG-GCg -3'
miRNA:   3'- -CGCU----AGCu----CCUCUa----CACCUCCCCaCG- -5'
29620 3' -55.3 NC_006151.1 + 49521 0.73 0.605287
Target:  5'- gGCGGaggaCGAGGAGggG-GGAGGGGgGUg -3'
miRNA:   3'- -CGCUa---GCUCCUCuaCaCCUCCCCaCG- -5'
29620 3' -55.3 NC_006151.1 + 30692 0.73 0.605287
Target:  5'- gGCGggCGGGGGGGUGUcGGGGccGGGUucGCu -3'
miRNA:   3'- -CGCuaGCUCCUCUACA-CCUC--CCCA--CG- -5'
29620 3' -55.3 NC_006151.1 + 33160 0.72 0.622649
Target:  5'- gGCgGGUCGggggcggggaggaaGGGAGGUGUGGGGGGaugGCc -3'
miRNA:   3'- -CG-CUAGC--------------UCCUCUACACCUCCCca-CG- -5'
29620 3' -55.3 NC_006151.1 + 11799 0.72 0.635941
Target:  5'- gGCGAgaggggCGGGGuGggGUGGGGGGcGgcgGCg -3'
miRNA:   3'- -CGCUa-----GCUCCuCuaCACCUCCC-Ca--CG- -5'
29620 3' -55.3 NC_006151.1 + 42810 0.72 0.666567
Target:  5'- cGCG-UCGAGGucGUGUGGGggagagagacGGGGUGg -3'
miRNA:   3'- -CGCuAGCUCCucUACACCU----------CCCCACg -5'
29620 3' -55.3 NC_006151.1 + 43238 0.72 0.666567
Target:  5'- gGCGAcacCGGGGAGugcGUGcgGGuguGGGGUGCu -3'
miRNA:   3'- -CGCUa--GCUCCUC---UACa-CCu--CCCCACG- -5'
29620 3' -55.3 NC_006151.1 + 29787 0.71 0.676731
Target:  5'- -aGAgagaGAGGAGAgGgaggGGAGGGGUGg -3'
miRNA:   3'- cgCUag--CUCCUCUaCa---CCUCCCCACg -5'
29620 3' -55.3 NC_006151.1 + 1962 0.71 0.686859
Target:  5'- ---cUCGAGGAGccgGUGGAGGGGc-- -3'
miRNA:   3'- cgcuAGCUCCUCua-CACCUCCCCacg -5'
29620 3' -55.3 NC_006151.1 + 26287 0.71 0.686859
Target:  5'- gGCGGaCGGuGGGGUG-GGGGGGGUGg -3'
miRNA:   3'- -CGCUaGCUcCUCUACaCCUCCCCACg -5'
29620 3' -55.3 NC_006151.1 + 66823 0.71 0.696941
Target:  5'- gGCGA-CGAGGAGGa-UGGGGGGGa-- -3'
miRNA:   3'- -CGCUaGCUCCUCUacACCUCCCCacg -5'
29620 3' -55.3 NC_006151.1 + 44768 0.71 0.725842
Target:  5'- uGCGAUCGcgcggagagagcgGGGAGAagcgggggGUGaaaGGGGGUGCu -3'
miRNA:   3'- -CGCUAGC-------------UCCUCUa-------CACc--UCCCCACG- -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.