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 + 92787 0.77 0.330077
Target:  5'- gCUGaGGCUCGGgacuagcaAGCGGGGGUGAGGUg -3'
miRNA:   3'- -GACgUCGAGCCg-------UCGCUCUCACUCCA- -5'
13943 3' -58.4 NC_003521.1 + 173127 0.76 0.37467
Target:  5'- cCUGCAGCUCGGCcucagacuccgagAGCGAGuccGAGGa -3'
miRNA:   3'- -GACGUCGAGCCG-------------UCGCUCucaCUCCa -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 + 207447 0.72 0.5631
Target:  5'- -gGCGGCU-GGCGGCGuguguGAGUGAcGGUg -3'
miRNA:   3'- gaCGUCGAgCCGUCGCu----CUCACU-CCA- -5'
13943 3' -58.4 NC_003521.1 + 164732 0.71 0.592464
Target:  5'- gCUGCGGCggCGGCAGCGGcGAccGUGAcGGc -3'
miRNA:   3'- -GACGUCGa-GCCGUCGCU-CU--CACU-CCa -5'
13943 3' -58.4 NC_003521.1 + 87063 0.71 0.602315
Target:  5'- -aGCAGCggguggaaggCGGCGGCGuAGGGguUGAGGUc -3'
miRNA:   3'- gaCGUCGa---------GCCGUCGC-UCUC--ACUCCA- -5'
13943 3' -58.4 NC_003521.1 + 92021 0.71 0.602315
Target:  5'- -cGCGGCggCGGCGGCGGuGGGUccgGGGGUc -3'
miRNA:   3'- gaCGUCGa-GCCGUCGCU-CUCA---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 + 213844 0.71 0.61515
Target:  5'- -aGCAGUUCGGCccagucucgcugcagGGCGuccauggcacccaAGAGUGAGGa -3'
miRNA:   3'- gaCGUCGAGCCG---------------UCGC-------------UCUCACUCCa -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 + 209564 0.71 0.641856
Target:  5'- -gGCGGCgaCGGUGGCGGGGGUccGGGGg -3'
miRNA:   3'- gaCGUCGa-GCCGUCGCUCUCA--CUCCa -5'
13943 3' -58.4 NC_003521.1 + 120936 0.7 0.661612
Target:  5'- -cGCGGCggCGGCuccGGCGAGGGgcaGGGGg -3'
miRNA:   3'- gaCGUCGa-GCCG---UCGCUCUCa--CUCCa -5'
13943 3' -58.4 NC_003521.1 + 117401 0.7 0.68128
Target:  5'- gCUGCGGCgUGGCGGUGgaAGAG-GAGGc -3'
miRNA:   3'- -GACGUCGaGCCGUCGC--UCUCaCUCCa -5'
13943 3' -58.4 NC_003521.1 + 91471 0.69 0.710477
Target:  5'- -cGCAGCUCGcggguGUAuGCGuGGGUGGGGg -3'
miRNA:   3'- gaCGUCGAGC-----CGU-CGCuCUCACUCCa -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 + 59434 0.69 0.739113
Target:  5'- -aGCGGCgccgccgcCGGCAGCGAGcucGAGGUc -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 + 85909 0.69 0.757783
Target:  5'- -gGCGGCcgCGGCuGcCGGGGGgGAGGUg -3'
miRNA:   3'- gaCGUCGa-GCCGuC-GCUCUCaCUCCA- -5'
13943 3' -58.4 NC_003521.1 + 72534 0.68 0.766966
Target:  5'- gCUGCGGaggCGGCGGCGAcGGUGucGUc -3'
miRNA:   3'- -GACGUCga-GCCGUCGCUcUCACucCA- -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.