miRNA display CGI


Results 1 - 16 of 16 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
13054 5' -53.8 NC_003390.1 + 10199 0.66 0.737294
Target:  5'- gGUCCucaaGCAGGCCUAuGGCAAuGCUGc -3'
miRNA:   3'- gUAGG----CGUUCGGGUcCUGUUuCGACu -5'
13054 5' -53.8 NC_003390.1 + 21347 0.66 0.737294
Target:  5'- gGUCUauGCGGGCCuauCAGGAUc-AGCUGAa -3'
miRNA:   3'- gUAGG--CGUUCGG---GUCCUGuuUCGACU- -5'
13054 5' -53.8 NC_003390.1 + 37911 0.66 0.726369
Target:  5'- gGUCCcCAAGguaaCCCAGGGCugacgguGCUGAu -3'
miRNA:   3'- gUAGGcGUUC----GGGUCCUGuuu----CGACU- -5'
13054 5' -53.8 NC_003390.1 + 15480 0.66 0.714237
Target:  5'- uCAUCUGCAAGCUCuGGguuauccGCAcucauGAGCUGc -3'
miRNA:   3'- -GUAGGCGUUCGGGuCC-------UGU-----UUCGACu -5'
13054 5' -53.8 NC_003390.1 + 47560 0.66 0.703116
Target:  5'- uGUCCGCu-GCCCucauggcAGGcCAAGGcCUGAu -3'
miRNA:   3'- gUAGGCGuuCGGG-------UCCuGUUUC-GACU- -5'
13054 5' -53.8 NC_003390.1 + 10967 0.67 0.670491
Target:  5'- --aCCGCGaagAGCCCuGGAguGGGCUa- -3'
miRNA:   3'- guaGGCGU---UCGGGuCCUguUUCGAcu -5'
13054 5' -53.8 NC_003390.1 + 27915 0.67 0.670491
Target:  5'- --cCUGCAgcAGCCCAGGGuauCGAcacccugcAGCUGAu -3'
miRNA:   3'- guaGGCGU--UCGGGUCCU---GUU--------UCGACU- -5'
13054 5' -53.8 NC_003390.1 + 2096 0.68 0.603406
Target:  5'- uCAUCCaccgucuacgggcaGCAAGCCCucagacaggccacagGGGugAucGCUGAg -3'
miRNA:   3'- -GUAGG--------------CGUUCGGG---------------UCCugUuuCGACU- -5'
13054 5' -53.8 NC_003390.1 + 2612 0.68 0.568386
Target:  5'- cCAUCCGguGGUCuCAGuGAUGGAGCgGAg -3'
miRNA:   3'- -GUAGGCguUCGG-GUC-CUGUUUCGaCU- -5'
13054 5' -53.8 NC_003390.1 + 11150 0.69 0.546058
Target:  5'- uGUCCGCAagGGCaCCaAGGuCA-AGCUGAu -3'
miRNA:   3'- gUAGGCGU--UCG-GG-UCCuGUuUCGACU- -5'
13054 5' -53.8 NC_003390.1 + 47336 0.69 0.524017
Target:  5'- aCAUCaGCAgcAGCCUgaauGACAGAGCUGAa -3'
miRNA:   3'- -GUAGgCGU--UCGGGuc--CUGUUUCGACU- -5'
13054 5' -53.8 NC_003390.1 + 30767 0.7 0.502325
Target:  5'- --cCCGCAcugggGGCCgAGGAU--GGCUGAa -3'
miRNA:   3'- guaGGCGU-----UCGGgUCCUGuuUCGACU- -5'
13054 5' -53.8 NC_003390.1 + 10289 0.7 0.460193
Target:  5'- gAUCUacaaggGCAAGCCCcuugAGGAUuGGGCUGAg -3'
miRNA:   3'- gUAGG------CGUUCGGG----UCCUGuUUCGACU- -5'
13054 5' -53.8 NC_003390.1 + 10469 0.71 0.429858
Target:  5'- gCAUCCGCcgAGGCUCuGGugG-AGCUGGg -3'
miRNA:   3'- -GUAGGCG--UUCGGGuCCugUuUCGACU- -5'
13054 5' -53.8 NC_003390.1 + 44408 0.73 0.346396
Target:  5'- uGUCUGCAGaauggcucaucGCCCAGGAgGuuGCUGGu -3'
miRNA:   3'- gUAGGCGUU-----------CGGGUCCUgUuuCGACU- -5'
13054 5' -53.8 NC_003390.1 + 3934 1.09 0.000955
Target:  5'- aCAUCCGCAAGCCCAGGACAAAGCUGAu -3'
miRNA:   3'- -GUAGGCGUUCGGGUCCUGUUUCGACU- -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.