miRNA display CGI


Results 1 - 20 of 36 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
1357 5' -49.5 NC_001335.1 + 21723 0.74 0.590593
Target:  5'- aCGAACCUGcgcGAUG-ACcUCGACAGCg -3'
miRNA:   3'- -GCUUGGGCaa-CUACuUGcAGCUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 29386 0.76 0.490707
Target:  5'- cCGcGCCUgcaguggGUUGAUGAACGUgUGGCAGCg -3'
miRNA:   3'- -GCuUGGG-------CAACUACUUGCA-GCUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 24435 0.68 0.908665
Target:  5'- gCGuAGCCaCGcuucagcgacUUGGUGAACGcggacuUCGACAGCc -3'
miRNA:   3'- -GC-UUGG-GC----------AACUACUUGC------AGCUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 27599 0.68 0.901787
Target:  5'- aGAACUCGUgguccUGuuCGUCGGCGGUa -3'
miRNA:   3'- gCUUGGGCAacu--ACuuGCAGCUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 12597 0.69 0.87946
Target:  5'- uGAGCCCGaagUGAUGGcgcugaucgaGCGcCGGCuccAGCa -3'
miRNA:   3'- gCUUGGGCa--ACUACU----------UGCaGCUG---UCG- -5'
1357 5' -49.5 NC_001335.1 + 9744 0.7 0.827736
Target:  5'- -cGGCCUGUUGGgcacGAugGUCGAC-GCc -3'
miRNA:   3'- gcUUGGGCAACUa---CUugCAGCUGuCG- -5'
1357 5' -49.5 NC_001335.1 + 25888 0.66 0.957482
Target:  5'- aGAugguGCCCu----UGGugGUCGACGGCc -3'
miRNA:   3'- gCU----UGGGcaacuACUugCAGCUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 9089 0.67 0.938685
Target:  5'- cCGAGCuUCGgucGAUGAccgACG-CGGCGGCg -3'
miRNA:   3'- -GCUUG-GGCaa-CUACU---UGCaGCUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 37977 0.67 0.933266
Target:  5'- uGGGCuCCGcUGAgccccacCGUCGGCAGCc -3'
miRNA:   3'- gCUUG-GGCaACUacuu---GCAGCUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 37426 0.68 0.901787
Target:  5'- ---gUCCGUUGAUGAucuCuUCGGCGGUg -3'
miRNA:   3'- gcuuGGGCAACUACUu--GcAGCUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 45247 0.74 0.609786
Target:  5'- aCGAACCCGUagcucuUGAUGuacuccucgaggucGAUGUCGACguacAGCg -3'
miRNA:   3'- -GCUUGGGCA------ACUAC--------------UUGCAGCUG----UCG- -5'
1357 5' -49.5 NC_001335.1 + 1146 0.67 0.943813
Target:  5'- gGAGCCCccgGAUcGGGCGgcguaGGCGGCg -3'
miRNA:   3'- gCUUGGGcaaCUA-CUUGCag---CUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 18057 0.72 0.747055
Target:  5'- gCGAagACCCGUUGGUGAA----GGCAGCc -3'
miRNA:   3'- -GCU--UGGGCAACUACUUgcagCUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 30306 0.68 0.92155
Target:  5'- -cAGCCCGgUGGUcucagUGUCGACGGCg -3'
miRNA:   3'- gcUUGGGCaACUAcuu--GCAGCUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 33098 0.66 0.953207
Target:  5'- gGAGCCC-UUGAUGAgccccGCGaaccucuugagaUCGGCuGCg -3'
miRNA:   3'- gCUUGGGcAACUACU-----UGC------------AGCUGuCG- -5'
1357 5' -49.5 NC_001335.1 + 33147 0.71 0.798805
Target:  5'- uCGGcCUCGUaggcgucugGAUGGACGUUGGCGGUg -3'
miRNA:   3'- -GCUuGGGCAa--------CUACUUGCAGCUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 8362 0.75 0.579351
Target:  5'- aGAagGCCCGUagcggccgggUGGUGAugGUucgaUGACAGCa -3'
miRNA:   3'- gCU--UGGGCA----------ACUACUugCA----GCUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 49730 0.7 0.818296
Target:  5'- uGuGCCCGUUGcgGucuguGCGUCaACGGCc -3'
miRNA:   3'- gCuUGGGCAACuaCu----UGCAGcUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 26916 0.7 0.827736
Target:  5'- gGAACUCGgagacgUGAUGugguACGUCGccCAGCu -3'
miRNA:   3'- gCUUGGGCa-----ACUACu---UGCAGCu-GUCG- -5'
1357 5' -49.5 NC_001335.1 + 16438 0.7 0.827736
Target:  5'- gGAACaCCGgggUGAgucccugcugGAACGUCGAggagaCAGCg -3'
miRNA:   3'- gCUUG-GGCa--ACUa---------CUUGCAGCU-----GUCG- -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.