miRNA display CGI


Results 1 - 20 of 59 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
23145 3' -59.4 NC_005178.1 + 478 0.67 0.347564
Target:  5'- -cCGGGACGCCAGCGagugcugccgccuCGuCCAGCgagcCGg -3'
miRNA:   3'- ucGUCCUGUGGUCGC-------------GCuGGUCGa---GC- -5'
23145 3' -59.4 NC_005178.1 + 1612 0.69 0.251423
Target:  5'- cGCAGGAagucaucCCAGCGCaacaugcgGAUCAGUUCGc -3'
miRNA:   3'- uCGUCCUgu-----GGUCGCG--------CUGGUCGAGC- -5'
23145 3' -59.4 NC_005178.1 + 2561 0.68 0.264759
Target:  5'- aGGCuGGuCggcgccucgGCCAGCGCGGCCAaguaggacgcGCUCa -3'
miRNA:   3'- -UCGuCCuG---------UGGUCGCGCUGGU----------CGAGc -5'
23145 3' -59.4 NC_005178.1 + 2901 0.66 0.383168
Target:  5'- uGCuGGACAUgGcGCGCcucGGCCAGgUCGa -3'
miRNA:   3'- uCGuCCUGUGgU-CGCG---CUGGUCgAGC- -5'
23145 3' -59.4 NC_005178.1 + 3961 0.73 0.134867
Target:  5'- gAGCGcGuCGCCGGuCGCGACCAGCacgUCGg -3'
miRNA:   3'- -UCGUcCuGUGGUC-GCGCUGGUCG---AGC- -5'
23145 3' -59.4 NC_005178.1 + 5341 0.68 0.271639
Target:  5'- gAGCuGuACACCGGUGCGGCCccgAGCcCGa -3'
miRNA:   3'- -UCGuCcUGUGGUCGCGCUGG---UCGaGC- -5'
23145 3' -59.4 NC_005178.1 + 5711 0.67 0.31595
Target:  5'- aAGguGGACAgCAgGCGCuGA-UAGCUCGa -3'
miRNA:   3'- -UCguCCUGUgGU-CGCG-CUgGUCGAGC- -5'
23145 3' -59.4 NC_005178.1 + 6481 0.66 0.365501
Target:  5'- gAGCuGGugAgCCAGUuCGGCCAGgUCa -3'
miRNA:   3'- -UCGuCCugU-GGUCGcGCUGGUCgAGc -5'
23145 3' -59.4 NC_005178.1 + 8300 0.77 0.064072
Target:  5'- uGGCAGGAUgaaGCCGGCGcCGGCCGaCUCGu -3'
miRNA:   3'- -UCGUCCUG---UGGUCGC-GCUGGUcGAGC- -5'
23145 3' -59.4 NC_005178.1 + 8659 0.69 0.226415
Target:  5'- cGUAGGccuGC-CCAGcCGCGACCAGgUCu -3'
miRNA:   3'- uCGUCC---UGuGGUC-GCGCUGGUCgAGc -5'
23145 3' -59.4 NC_005178.1 + 9363 0.68 0.264759
Target:  5'- cAGCAGu-CGCCAGgGCG-CCGGC-CGa -3'
miRNA:   3'- -UCGUCcuGUGGUCgCGCuGGUCGaGC- -5'
23145 3' -59.4 NC_005178.1 + 12203 0.77 0.065773
Target:  5'- -cCAGGACACCAGCGCGGcucuuuuCCAGCg-- -3'
miRNA:   3'- ucGUCCUGUGGUCGCGCU-------GGUCGagc -5'
23145 3' -59.4 NC_005178.1 + 12672 0.75 0.0933
Target:  5'- uGGCGGGugGCCugguuGCcuGCGGCCuGCUCGc -3'
miRNA:   3'- -UCGUCCugUGGu----CG--CGCUGGuCGAGC- -5'
23145 3' -59.4 NC_005178.1 + 13077 0.66 0.392211
Target:  5'- gAGCGGG---UCGGuCGCGACCuuguacAGCUCGa -3'
miRNA:   3'- -UCGUCCuguGGUC-GCGCUGG------UCGAGC- -5'
23145 3' -59.4 NC_005178.1 + 13125 0.67 0.331886
Target:  5'- uGgAGGuGCuCCAGCGCcuGGCCAGCUUc -3'
miRNA:   3'- uCgUCC-UGuGGUCGCG--CUGGUCGAGc -5'
23145 3' -59.4 NC_005178.1 + 13153 0.66 0.374264
Target:  5'- cGCAGGgcaacggucgGCugCGGCGCGgugaacaugcccACCuGCUUGg -3'
miRNA:   3'- uCGUCC----------UGugGUCGCGC------------UGGuCGAGC- -5'
23145 3' -59.4 NC_005178.1 + 13260 0.66 0.392211
Target:  5'- cAGCAguuGGACcucGCCguaGGCGCcAUCGGCUCGc -3'
miRNA:   3'- -UCGU---CCUG---UGG---UCGCGcUGGUCGAGC- -5'
23145 3' -59.4 NC_005178.1 + 13312 0.67 0.348404
Target:  5'- gGGUcgaGGGGCGCCGggcugcucGCGCugucggugauGACCAGUUCGc -3'
miRNA:   3'- -UCG---UCCUGUGGU--------CGCG----------CUGGUCGAGC- -5'
23145 3' -59.4 NC_005178.1 + 14314 0.7 0.203548
Target:  5'- aGGCcGGGCACCucGGCGCGGaugcGCUCGa -3'
miRNA:   3'- -UCGuCCUGUGG--UCGCGCUggu-CGAGC- -5'
23145 3' -59.4 NC_005178.1 + 14748 0.66 0.35688
Target:  5'- uGGCGgauGGACGCCucgccguacuGCuCGACCAGgUCGg -3'
miRNA:   3'- -UCGU---CCUGUGGu---------CGcGCUGGUCgAGC- -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.