miRNA display CGI


Results 1 - 20 of 69 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
21235 3' -53.2 NC_004778.3 + 113919 0.66 0.959369
Target:  5'- gGUUCcucgcucgCGGAGAGCGAGcG-CGGCGg- -3'
miRNA:   3'- gCAAGa-------GCUUUUCGCUC-CaGCCGCga -5'
21235 3' -53.2 NC_004778.3 + 122699 0.66 0.953944
Target:  5'- uGUUCUCGAAaaacAAGUGcuaucuuuagacuGcGUCGGCGCc -3'
miRNA:   3'- gCAAGAGCUU----UUCGCu------------C-CAGCCGCGa -5'
21235 3' -53.2 NC_004778.3 + 45644 0.67 0.942617
Target:  5'- uGUcUUCGGAcAGCGAcGGUCcGCGCg -3'
miRNA:   3'- gCAaGAGCUUuUCGCU-CCAGcCGCGa -5'
21235 3' -53.2 NC_004778.3 + 114070 0.67 0.937818
Target:  5'- uCGcUCUCcgcGAGCGAGGaacccgCGGCGCc -3'
miRNA:   3'- -GCaAGAGcuuUUCGCUCCa-----GCCGCGa -5'
21235 3' -53.2 NC_004778.3 + 31403 0.67 0.937818
Target:  5'- -uUUCUCGGc--GCGAGGUgCGcGCGCc -3'
miRNA:   3'- gcAAGAGCUuuuCGCUCCA-GC-CGCGa -5'
21235 3' -53.2 NC_004778.3 + 42489 0.68 0.916117
Target:  5'- aCGUUgggggUUGAGGgcGGCGuGGUCGGCGUg -3'
miRNA:   3'- -GCAAg----AGCUUU--UCGCuCCAGCCGCGa -5'
21235 3' -53.2 NC_004778.3 + 20040 0.68 0.910066
Target:  5'- aCGUaa--GAuagcacuGCGAGGUCGGCGCc -3'
miRNA:   3'- -GCAagagCUuuu----CGCUCCAGCCGCGa -5'
21235 3' -53.2 NC_004778.3 + 5138 0.68 0.910066
Target:  5'- cCGUUCUCGAAAcaacGCGccguGGcaaugucgCGGCGCa -3'
miRNA:   3'- -GCAAGAGCUUUu---CGCu---CCa-------GCCGCGa -5'
21235 3' -53.2 NC_004778.3 + 122239 0.68 0.897223
Target:  5'- ---aCUUGAAAAGCGGGGUCaaUGCUg -3'
miRNA:   3'- gcaaGAGCUUUUCGCUCCAGccGCGA- -5'
21235 3' -53.2 NC_004778.3 + 19715 0.69 0.883411
Target:  5'- uGUUCUCGAAAAGCGAGugcuaucuuuaGaCGuGCGUc -3'
miRNA:   3'- gCAAGAGCUUUUCGCUC-----------CaGC-CGCGa -5'
21235 3' -53.2 NC_004778.3 + 125222 0.69 0.876152
Target:  5'- uCGUaCUUGAAAAuCGGGGUCaGCGCc -3'
miRNA:   3'- -GCAaGAGCUUUUcGCUCCAGcCGCGa -5'
21235 3' -53.2 NC_004778.3 + 66588 0.7 0.810385
Target:  5'- gCGUUCUCGAAAAGCGAGugcuaucuuuaGaCGuGCGUc -3'
miRNA:   3'- -GCAAGAGCUUUUCGCUC-----------CaGC-CGCGa -5'
21235 3' -53.2 NC_004778.3 + 124255 0.7 0.810385
Target:  5'- gCGUUcCUCGGcAGGGCGAucGGcagcUCGGCGCg -3'
miRNA:   3'- -GCAA-GAGCU-UUUCGCU--CC----AGCCGCGa -5'
21235 3' -53.2 NC_004778.3 + 117172 0.71 0.792081
Target:  5'- uGUUCguggUCGugccgguGGCGGGGUCGGUGUa -3'
miRNA:   3'- gCAAG----AGCuuu----UCGCUCCAGCCGCGa -5'
21235 3' -53.2 NC_004778.3 + 99245 0.71 0.782697
Target:  5'- uCGUaUUUGuAAAGCGAGGUC-GCGCUg -3'
miRNA:   3'- -GCAaGAGCuUUUCGCUCCAGcCGCGA- -5'
21235 3' -53.2 NC_004778.3 + 122638 0.71 0.750777
Target:  5'- -uUUCUCGAAAAGCGAGugcuauaaacgugcGUCaGCGCc -3'
miRNA:   3'- gcAAGAGCUUUUCGCUC--------------CAGcCGCGa -5'
21235 3' -53.2 NC_004778.3 + 99437 0.72 0.742846
Target:  5'- gCGUUCUCGAAAAGCGAGcgcuaucuuauacGUgCGucaGCGCg -3'
miRNA:   3'- -GCAAGAGCUUUUCGCUC-------------CA-GC---CGCGa -5'
21235 3' -53.2 NC_004778.3 + 60949 0.72 0.723758
Target:  5'- ---aCUCuu-GAGCGuGGUCGGCGCa -3'
miRNA:   3'- gcaaGAGcuuUUCGCuCCAGCCGCGa -5'
21235 3' -53.2 NC_004778.3 + 66850 0.72 0.712566
Target:  5'- uGUaCcCGAAAAGCGAGGcuaucuuuaggcgUCGGCGCc -3'
miRNA:   3'- gCAaGaGCUUUUCGCUCC-------------AGCCGCGa -5'
21235 3' -53.2 NC_004778.3 + 99847 0.73 0.651371
Target:  5'- aCGUUCUCaAAAGGCaGGGUCGaCGCUg -3'
miRNA:   3'- -GCAAGAGcUUUUCGcUCCAGCcGCGA- -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.