miRNA display CGI


Results 1 - 20 of 51 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
23378 3' -57.8 NC_005259.1 + 17820 0.66 0.650141
Target:  5'- gAGCUcagCGAGGCCAUcgacgggugGGCCgaGGcCACCc -3'
miRNA:   3'- -UCGA---GCUCCGGUGa--------CUGGgaCU-GUGG- -5'
23378 3' -57.8 NC_005259.1 + 15139 0.66 0.650141
Target:  5'- aGGUguaCGGGGCCACcucggUGGCCgaGGCcgagGCCa -3'
miRNA:   3'- -UCGa--GCUCCGGUG-----ACUGGgaCUG----UGG- -5'
23378 3' -57.8 NC_005259.1 + 10341 0.66 0.650141
Target:  5'- gGGCUCGGcGGCaGCgGGCUC-GACAUCg -3'
miRNA:   3'- -UCGAGCU-CCGgUGaCUGGGaCUGUGG- -5'
23378 3' -57.8 NC_005259.1 + 48905 0.66 0.650141
Target:  5'- gAGCUcaaCGAG-CUGCUGGgCCUGACcgacGCCa -3'
miRNA:   3'- -UCGA---GCUCcGGUGACUgGGACUG----UGG- -5'
23378 3' -57.8 NC_005259.1 + 547 0.66 0.639478
Target:  5'- -uCUCGuGGaCCaaGCUGACCC--GCACCa -3'
miRNA:   3'- ucGAGCuCC-GG--UGACUGGGacUGUGG- -5'
23378 3' -57.8 NC_005259.1 + 37225 0.66 0.639478
Target:  5'- cGC-CGGGG-CGCUGGCCCgugccggauUGGCuGCCg -3'
miRNA:   3'- uCGaGCUCCgGUGACUGGG---------ACUG-UGG- -5'
23378 3' -57.8 NC_005259.1 + 60421 0.66 0.628808
Target:  5'- uGCUCGGGGguggcCCACggggcGGCCaCgcccGACACCu -3'
miRNA:   3'- uCGAGCUCC-----GGUGa----CUGG-Ga---CUGUGG- -5'
23378 3' -57.8 NC_005259.1 + 13432 0.66 0.628808
Target:  5'- cGC-CGGGGCCGCgcuaggcgUGACCgUcGGCGCg -3'
miRNA:   3'- uCGaGCUCCGGUG--------ACUGGgA-CUGUGg -5'
23378 3' -57.8 NC_005259.1 + 18177 0.66 0.628808
Target:  5'- uGGCagUCGAGGUC---GACCCcGACAUCg -3'
miRNA:   3'- -UCG--AGCUCCGGugaCUGGGaCUGUGG- -5'
23378 3' -57.8 NC_005259.1 + 21004 0.66 0.628808
Target:  5'- -aCUCG-GGCgGC-GACCCUGACcggcagcugACCg -3'
miRNA:   3'- ucGAGCuCCGgUGaCUGGGACUG---------UGG- -5'
23378 3' -57.8 NC_005259.1 + 50447 0.66 0.628808
Target:  5'- gGGCUCGGGGUCGCcgGucuCgCUGAuCACg -3'
miRNA:   3'- -UCGAGCUCCGGUGa-Cu--GgGACU-GUGg -5'
23378 3' -57.8 NC_005259.1 + 21567 0.66 0.618141
Target:  5'- uGCgaacacugCGAGGUCgAUUGGCCaugcGACACCg -3'
miRNA:   3'- uCGa-------GCUCCGG-UGACUGGga--CUGUGG- -5'
23378 3' -57.8 NC_005259.1 + 2128 0.66 0.618141
Target:  5'- cGC-CGAGGUCACgcaGACCC--GCACg -3'
miRNA:   3'- uCGaGCUCCGGUGa--CUGGGacUGUGg -5'
23378 3' -57.8 NC_005259.1 + 55503 0.66 0.618141
Target:  5'- cAGCgucaCGAGGCCcacagcgaACUGugCCcacaGCGCCg -3'
miRNA:   3'- -UCGa---GCUCCGG--------UGACugGGac--UGUGG- -5'
23378 3' -57.8 NC_005259.1 + 47641 0.66 0.618141
Target:  5'- gGGCagCGAGGCCcucuuugaacguGCUGuugaugGCCUUGGcCACCu -3'
miRNA:   3'- -UCGa-GCUCCGG------------UGAC------UGGGACU-GUGG- -5'
23378 3' -57.8 NC_005259.1 + 21928 0.66 0.607485
Target:  5'- aGGCagUCGAGGCCAUcGAgucUCaCUGGCGCa -3'
miRNA:   3'- -UCG--AGCUCCGGUGaCU---GG-GACUGUGg -5'
23378 3' -57.8 NC_005259.1 + 57462 0.66 0.607485
Target:  5'- cGCUgCGgcAGGCCGgUGGCaCCgGACACg -3'
miRNA:   3'- uCGA-GC--UCCGGUgACUG-GGaCUGUGg -5'
23378 3' -57.8 NC_005259.1 + 33954 0.67 0.595788
Target:  5'- cAGCUUGAGGCuCAUcccacgaccaccuUG-CCCUGA-GCCg -3'
miRNA:   3'- -UCGAGCUCCG-GUG-------------ACuGGGACUgUGG- -5'
23378 3' -57.8 NC_005259.1 + 60354 0.67 0.586242
Target:  5'- cAGgUCGAGGCC-CUG-CCCgaaauccCGCCa -3'
miRNA:   3'- -UCgAGCUCCGGuGACuGGGacu----GUGG- -5'
23378 3' -57.8 NC_005259.1 + 63230 0.67 0.575671
Target:  5'- cAGaUCGGGGUCGCUggucaGACCC-GACGCg -3'
miRNA:   3'- -UCgAGCUCCGGUGA-----CUGGGaCUGUGg -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.