miRNA display CGI


Results 1 - 20 of 53 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
13943 3' -58.4 NC_003521.1 + 12514 1.07 0.003425
Target:  5'- aCUGCAGCUCGGCAGCGAGAGUGAGGUc -3'
miRNA:   3'- -GACGUCGAGCCGUCGCUCUCACUCCA- -5'
13943 3' -58.4 NC_003521.1 + 19427 0.68 0.784988
Target:  5'- aCUGCAGC-CGGCAGgaccgggaagaCGAaGAG-GAGGa -3'
miRNA:   3'- -GACGUCGaGCCGUC-----------GCU-CUCaCUCCa -5'
13943 3' -58.4 NC_003521.1 + 19741 0.66 0.89352
Target:  5'- gCUGCcGCUUuGCGGCGguAGAG-GAGGg -3'
miRNA:   3'- -GACGuCGAGcCGUCGC--UCUCaCUCCa -5'
13943 3' -58.4 NC_003521.1 + 31675 0.73 0.515126
Target:  5'- -cGCAGCUCGGCguucuccaGGUGAaAGUGGGGc -3'
miRNA:   3'- gaCGUCGAGCCG--------UCGCUcUCACUCCa -5'
13943 3' -58.4 NC_003521.1 + 36384 0.67 0.80764
Target:  5'- -gGCAGCgaggugaccaccaCGGCGGgGAGGGUGgcgaGGGUg -3'
miRNA:   3'- gaCGUCGa------------GCCGUCgCUCUCAC----UCCA- -5'
13943 3' -58.4 NC_003521.1 + 38137 0.67 0.843618
Target:  5'- aCUGCAGCUUuacCGGCGuGGGUG-GGUu -3'
miRNA:   3'- -GACGUCGAGcc-GUCGCuCUCACuCCA- -5'
13943 3' -58.4 NC_003521.1 + 41705 0.67 0.827661
Target:  5'- gUGUAGa-CGGCGGCGGGGGUcGAGa- -3'
miRNA:   3'- gACGUCgaGCCGUCGCUCUCA-CUCca -5'
13943 3' -58.4 NC_003521.1 + 43817 0.71 0.612186
Target:  5'- -cGCGGCgcCGGCGGCGGGgAGcggGAGGg -3'
miRNA:   3'- gaCGUCGa-GCCGUCGCUC-UCa--CUCCa -5'
13943 3' -58.4 NC_003521.1 + 50523 0.66 0.866193
Target:  5'- gCUGCAGCggcaguaCGGCGugauCGAGGGcGAGGa -3'
miRNA:   3'- -GACGUCGa------GCCGUc---GCUCUCaCUCCa -5'
13943 3' -58.4 NC_003521.1 + 54332 0.67 0.843618
Target:  5'- gCUGgGGCUCGGCGGCaucggcGGAGgcgGcGGUg -3'
miRNA:   3'- -GACgUCGAGCCGUCGc-----UCUCa--CuCCA- -5'
13943 3' -58.4 NC_003521.1 + 55247 0.66 0.886999
Target:  5'- -aGCGGCUCGcCGGCGAGcccgcgGGGGa -3'
miRNA:   3'- gaCGUCGAGCcGUCGCUCuca---CUCCa -5'
13943 3' -58.4 NC_003521.1 + 59166 0.66 0.873332
Target:  5'- gCUGCGGCaCGGCGccGCGGGcAGUcAGGa -3'
miRNA:   3'- -GACGUCGaGCCGU--CGCUC-UCAcUCCa -5'
13943 3' -58.4 NC_003521.1 + 59434 0.69 0.739113
Target:  5'- -aGCGGCgccgccgcCGGCAGCGAGcucGAGGUc -3'
miRNA:   3'- gaCGUCGa-------GCCGUCGCUCucaCUCCA- -5'
13943 3' -58.4 NC_003521.1 + 69485 0.69 0.710477
Target:  5'- -aGCGGaacccgagCGGCGGCGGGAGUGccgccgacgucGGGUa -3'
miRNA:   3'- gaCGUCga------GCCGUCGCUCUCAC-----------UCCA- -5'
13943 3' -58.4 NC_003521.1 + 70234 0.71 0.630974
Target:  5'- -cGCAGCagGGCuaggcagGGCGAGcuGGUGGGGUg -3'
miRNA:   3'- gaCGUCGagCCG-------UCGCUC--UCACUCCA- -5'
13943 3' -58.4 NC_003521.1 + 71811 0.66 0.892877
Target:  5'- -gGCGGCgucgucuUCGGCGGCGGGcucGGUGAcGUc -3'
miRNA:   3'- gaCGUCG-------AGCCGUCGCUC---UCACUcCA- -5'
13943 3' -58.4 NC_003521.1 + 72534 0.68 0.766966
Target:  5'- gCUGCGGaggCGGCGGCGAcGGUGucGUc -3'
miRNA:   3'- -GACGUCga-GCCGUCGCUcUCACucCA- -5'
13943 3' -58.4 NC_003521.1 + 72779 0.69 0.757783
Target:  5'- -cGCAGCUCGG-AG-GAGAagacccgggucGUGAGGUa -3'
miRNA:   3'- gaCGUCGAGCCgUCgCUCU-----------CACUCCA- -5'
13943 3' -58.4 NC_003521.1 + 75113 0.67 0.835726
Target:  5'- gUGCAGgUCGuGCAGCGuGAGgcgcGGGa -3'
miRNA:   3'- gACGUCgAGC-CGUCGCuCUCac--UCCa -5'
13943 3' -58.4 NC_003521.1 + 85909 0.69 0.757783
Target:  5'- -gGCGGCcgCGGCuGcCGGGGGgGAGGUg -3'
miRNA:   3'- gaCGUCGa-GCCGuC-GCUCUCaCUCCA- -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.