miRNA display CGI


Results 1 - 20 of 37 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
30407 3' -57.9 NC_006548.1 + 1200 0.66 0.475553
Target:  5'- uCGCCgcaCAGGcguUGCUGGccgcGCaGACGGCc -3'
miRNA:   3'- -GCGGaugGUCC---ACGACCu---CG-CUGUCG- -5'
30407 3' -57.9 NC_006548.1 + 2284 1.12 0.000204
Target:  5'- aCGCCUACCAGGUGCUGGAGCGACAGCu -3'
miRNA:   3'- -GCGGAUGGUCCACGACCUCGCUGUCG- -5'
30407 3' -57.9 NC_006548.1 + 3849 0.66 0.465354
Target:  5'- gGUCUACC---UGCaGGAGCGGCGcGCu -3'
miRNA:   3'- gCGGAUGGuccACGaCCUCGCUGU-CG- -5'
30407 3' -57.9 NC_006548.1 + 4765 0.67 0.388217
Target:  5'- gCGCU--UCAGGUGCUuGAGCGuggcgauCGGCa -3'
miRNA:   3'- -GCGGauGGUCCACGAcCUCGCu------GUCG- -5'
30407 3' -57.9 NC_006548.1 + 4805 0.69 0.28937
Target:  5'- gCGCCUGCguGa-GUUGGAG-GACGGCu -3'
miRNA:   3'- -GCGGAUGguCcaCGACCUCgCUGUCG- -5'
30407 3' -57.9 NC_006548.1 + 6083 0.66 0.475553
Target:  5'- uCGC--GCCAGGgGUUGcGGGUGAuCAGCa -3'
miRNA:   3'- -GCGgaUGGUCCaCGAC-CUCGCU-GUCG- -5'
30407 3' -57.9 NC_006548.1 + 7292 0.71 0.23515
Target:  5'- gGUCaACCAGGcGCUGGGuGaUGACGGCa -3'
miRNA:   3'- gCGGaUGGUCCaCGACCU-C-GCUGUCG- -5'
30407 3' -57.9 NC_006548.1 + 12152 0.67 0.425747
Target:  5'- cCGCCgGCCAGcaGCaGGAGCauCAGCg -3'
miRNA:   3'- -GCGGaUGGUCcaCGaCCUCGcuGUCG- -5'
30407 3' -57.9 NC_006548.1 + 12978 0.69 0.319967
Target:  5'- gCGCgaGCCAGaacGUGCUGGuGCG-CAGg -3'
miRNA:   3'- -GCGgaUGGUC---CACGACCuCGCuGUCg -5'
30407 3' -57.9 NC_006548.1 + 13412 0.72 0.194947
Target:  5'- gGCggGCCAGGUcGCUGuuuGAGCGcCGGCg -3'
miRNA:   3'- gCGgaUGGUCCA-CGAC---CUCGCuGUCG- -5'
30407 3' -57.9 NC_006548.1 + 14369 0.82 0.038968
Target:  5'- uCGCUacgGCCAGaaGCUGGAGCGGCGGCu -3'
miRNA:   3'- -GCGGa--UGGUCcaCGACCUCGCUGUCG- -5'
30407 3' -57.9 NC_006548.1 + 14682 0.68 0.327986
Target:  5'- uGCCUGgaacuucuUCAGcGUgacGCUGGAGCGcguCAGCg -3'
miRNA:   3'- gCGGAU--------GGUC-CA---CGACCUCGCu--GUCG- -5'
30407 3' -57.9 NC_006548.1 + 15200 0.68 0.365016
Target:  5'- gGCCUGcgcguCCGGGuUGCUGGAcauacuguggauacgGCGGCcauuGGCg -3'
miRNA:   3'- gCGGAU-----GGUCC-ACGACCU---------------CGCUG----UCG- -5'
30407 3' -57.9 NC_006548.1 + 15231 0.67 0.40671
Target:  5'- uGCCUAuCCGGGcaucacCUGGGGUGGC-GCu -3'
miRNA:   3'- gCGGAU-GGUCCac----GACCUCGCUGuCG- -5'
30407 3' -57.9 NC_006548.1 + 16465 0.71 0.229007
Target:  5'- uCGCCcgaucgACCAGGcUGCggcagagcaccUGGAGCaGCAGCu -3'
miRNA:   3'- -GCGGa-----UGGUCC-ACG-----------ACCUCGcUGUCG- -5'
30407 3' -57.9 NC_006548.1 + 17613 0.68 0.361533
Target:  5'- gGCCaugGCCgAGGgGCUGGAG--GCAGCu -3'
miRNA:   3'- gCGGa--UGG-UCCaCGACCUCgcUGUCG- -5'
30407 3' -57.9 NC_006548.1 + 18166 0.71 0.235151
Target:  5'- gGCCgucccagGCCAGGUGCaguucgcGGGGauguuCGACGGCa -3'
miRNA:   3'- gCGGa------UGGUCCACGa------CCUC-----GCUGUCG- -5'
30407 3' -57.9 NC_006548.1 + 19331 0.68 0.336152
Target:  5'- uGCgCUACCA---GCUGGA-CGGCAGCg -3'
miRNA:   3'- gCG-GAUGGUccaCGACCUcGCUGUCG- -5'
30407 3' -57.9 NC_006548.1 + 20037 0.68 0.327985
Target:  5'- gGCCUauggcuggGCCaaGGGU-CUGGAggugcGCGACGGCa -3'
miRNA:   3'- gCGGA--------UGG--UCCAcGACCU-----CGCUGUCG- -5'
30407 3' -57.9 NC_006548.1 + 20090 0.68 0.352074
Target:  5'- aGCCgcACCAGGUGgUgccGGAGUucgccgaGGCGGCg -3'
miRNA:   3'- gCGGa-UGGUCCACgA---CCUCG-------CUGUCG- -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.