miRNA display CGI


Results 1 - 20 of 29 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
29853 5' -54.9 NC_006273.1 + 156283 0.72 0.780826
Target:  5'- -aGCGACGccgucGCUGGGuaucaaccccgcggcUGACCgUCGUCCGg -3'
miRNA:   3'- gaCGCUGU-----CGACCU---------------ACUGG-AGUAGGC- -5'
29853 5' -54.9 NC_006273.1 + 68424 0.66 0.975121
Target:  5'- -aGCGGCGGaCUGGAcgUGACCacccCCGa -3'
miRNA:   3'- gaCGCUGUC-GACCU--ACUGGaguaGGC- -5'
29853 5' -54.9 NC_006273.1 + 21376 0.66 0.972521
Target:  5'- -gGCGACcGuCUGGAggUGGCCUgCAUCUu -3'
miRNA:   3'- gaCGCUGuC-GACCU--ACUGGA-GUAGGc -5'
29853 5' -54.9 NC_006273.1 + 125386 0.66 0.966743
Target:  5'- uUGCuGCAGCgGGAUGAUUUCG-CCu -3'
miRNA:   3'- gACGcUGUCGaCCUACUGGAGUaGGc -5'
29853 5' -54.9 NC_006273.1 + 148654 0.67 0.963553
Target:  5'- -cGCGGCGGCUGaGGUGcUCUCGUggugcggccugcCCGa -3'
miRNA:   3'- gaCGCUGUCGAC-CUACuGGAGUA------------GGC- -5'
29853 5' -54.9 NC_006273.1 + 37300 0.67 0.960156
Target:  5'- uUGCGACGGCcGGAcauGCCggcaGUCCGc -3'
miRNA:   3'- gACGCUGUCGaCCUac-UGGag--UAGGC- -5'
29853 5' -54.9 NC_006273.1 + 185853 0.67 0.956546
Target:  5'- -gGaCGACGGUa-GAUGACCUCGUCUu -3'
miRNA:   3'- gaC-GCUGUCGacCUACUGGAGUAGGc -5'
29853 5' -54.9 NC_006273.1 + 192989 0.69 0.908123
Target:  5'- -aGCGAC-GCgacuuuggGGAUGGCCUCGUgCu -3'
miRNA:   3'- gaCGCUGuCGa-------CCUACUGGAGUAgGc -5'
29853 5' -54.9 NC_006273.1 + 31366 0.69 0.882406
Target:  5'- uCUGCGGCGGCUGGAcGaagaGCUgcggCAUCgCGg -3'
miRNA:   3'- -GACGCUGUCGACCUaC----UGGa---GUAG-GC- -5'
29853 5' -54.9 NC_006273.1 + 6497 0.67 0.948673
Target:  5'- gCUGCucGCAGUUGGGcu-CCUCGUCCu -3'
miRNA:   3'- -GACGc-UGUCGACCUacuGGAGUAGGc -5'
29853 5' -54.9 NC_006273.1 + 135199 0.67 0.944403
Target:  5'- gCUGCGGC-GCUGucucgGACCUgAUCCu -3'
miRNA:   3'- -GACGCUGuCGACcua--CUGGAgUAGGc -5'
29853 5' -54.9 NC_006273.1 + 44265 0.67 0.944403
Target:  5'- uUGCGAUgagaGGgaGGAUGGCC--GUCCGu -3'
miRNA:   3'- gACGCUG----UCgaCCUACUGGagUAGGC- -5'
29853 5' -54.9 NC_006273.1 + 164628 0.67 0.944403
Target:  5'- -aGCGGgaAGgUGGGgaaGGCCUCGUCCa -3'
miRNA:   3'- gaCGCUg-UCgACCUa--CUGGAGUAGGc -5'
29853 5' -54.9 NC_006273.1 + 163426 0.68 0.939907
Target:  5'- -cGCGugGGCUGGAaagccgugcugGGCCUCAaCgCGg -3'
miRNA:   3'- gaCGCugUCGACCUa----------CUGGAGUaG-GC- -5'
29853 5' -54.9 NC_006273.1 + 22203 0.68 0.935183
Target:  5'- -aGCGGCAGCaUGGgcGacaccGCCUCGguuUCCGa -3'
miRNA:   3'- gaCGCUGUCG-ACCuaC-----UGGAGU---AGGC- -5'
29853 5' -54.9 NC_006273.1 + 81708 0.68 0.919635
Target:  5'- uCUGCaGGC-GCUGGAUGGuggucuCCUCGUgCGg -3'
miRNA:   3'- -GACG-CUGuCGACCUACU------GGAGUAgGC- -5'
29853 5' -54.9 NC_006273.1 + 227852 0.7 0.860865
Target:  5'- gUGCGAgAGUacacgaUGGGUGGCuCUCGUCuCGg -3'
miRNA:   3'- gACGCUgUCG------ACCUACUG-GAGUAG-GC- -5'
29853 5' -54.9 NC_006273.1 + 155092 0.71 0.803965
Target:  5'- cCUGCGGCAacGCaaGGAUGACCU-GUCCu -3'
miRNA:   3'- -GACGCUGU--CGa-CCUACUGGAgUAGGc -5'
29853 5' -54.9 NC_006273.1 + 71955 0.72 0.767999
Target:  5'- aUGCGACuGCUGGggGGCCaacgCCGg -3'
miRNA:   3'- gACGCUGuCGACCuaCUGGaguaGGC- -5'
29853 5' -54.9 NC_006273.1 + 206002 0.66 0.977537
Target:  5'- cCUGCGACGuGC-GcGAcGACCgcuaCAUCCGg -3'
miRNA:   3'- -GACGCUGU-CGaC-CUaCUGGa---GUAGGC- -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.