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
12465 3' -50.4 NC_003324.1 + 1388 0.66 0.956106
Target:  5'- -gUGACAUCGAUgcGCCGAcGGugcUGGg -3'
miRNA:   3'- gaGCUGUAGCUA--CGGCUuCCuuaGCC- -5'
12465 3' -50.4 NC_003324.1 + 23309 0.66 0.951802
Target:  5'- --gGACAUCcGUGuuGAAGGuGUCGu -3'
miRNA:   3'- gagCUGUAGcUACggCUUCCuUAGCc -5'
12465 3' -50.4 NC_003324.1 + 13636 0.66 0.951802
Target:  5'- aUCGGCAUcCGAU-CCGAAG---UCGGg -3'
miRNA:   3'- gAGCUGUA-GCUAcGGCUUCcuuAGCC- -5'
12465 3' -50.4 NC_003324.1 + 30726 0.67 0.93723
Target:  5'- uCUUGGCGUCGGccgccUGCUGcucGGGAGUgaCGGa -3'
miRNA:   3'- -GAGCUGUAGCU-----ACGGCu--UCCUUA--GCC- -5'
12465 3' -50.4 NC_003324.1 + 41836 0.67 0.93723
Target:  5'- gUCGACAUCGAgcaaaugGuuGggGGugccgUGGc -3'
miRNA:   3'- gAGCUGUAGCUa------CggCuuCCuua--GCC- -5'
12465 3' -50.4 NC_003324.1 + 10245 0.67 0.931809
Target:  5'- aUCG-CAgCGAUGCCGgAAGGuc-CGGa -3'
miRNA:   3'- gAGCuGUaGCUACGGC-UUCCuuaGCC- -5'
12465 3' -50.4 NC_003324.1 + 54343 0.67 0.931809
Target:  5'- gCUCGGCGcUGAUGCCGGuccauGGcAAcCGGu -3'
miRNA:   3'- -GAGCUGUaGCUACGGCUu----CC-UUaGCC- -5'
12465 3' -50.4 NC_003324.1 + 45285 0.67 0.928419
Target:  5'- gCUCGGCGaucugugcuuccaguUCGA-GCCGGcgcuGGGAUCGa -3'
miRNA:   3'- -GAGCUGU---------------AGCUaCGGCUu---CCUUAGCc -5'
12465 3' -50.4 NC_003324.1 + 32704 0.67 0.926103
Target:  5'- cCUCGACAgUGAUGUCGAGuGGAGc--- -3'
miRNA:   3'- -GAGCUGUaGCUACGGCUU-CCUUagcc -5'
12465 3' -50.4 NC_003324.1 + 38369 0.67 0.920111
Target:  5'- gUCGcCGUCG-UGCgGGAGGAAgUGGu -3'
miRNA:   3'- gAGCuGUAGCuACGgCUUCCUUaGCC- -5'
12465 3' -50.4 NC_003324.1 + 5397 0.67 0.920111
Target:  5'- gUCGGCGUCGAggaucaUGUCGAu-GAcgCGGg -3'
miRNA:   3'- gAGCUGUAGCU------ACGGCUucCUuaGCC- -5'
12465 3' -50.4 NC_003324.1 + 23770 0.67 0.911898
Target:  5'- gUCGACAUCGAUgugaagcccggcgcGCCGu-GGAuacCGGc -3'
miRNA:   3'- gAGCUGUAGCUA--------------CGGCuuCCUua-GCC- -5'
12465 3' -50.4 NC_003324.1 + 22973 0.68 0.885934
Target:  5'- aUCGGCAUgGAUGCUGAguaugAGGca-CGGu -3'
miRNA:   3'- gAGCUGUAgCUACGGCU-----UCCuuaGCC- -5'
12465 3' -50.4 NC_003324.1 + 33794 0.68 0.885934
Target:  5'- gCUCGAguCAUCGucaCCGAAGG-AUUGGa -3'
miRNA:   3'- -GAGCU--GUAGCuacGGCUUCCuUAGCC- -5'
12465 3' -50.4 NC_003324.1 + 3246 0.68 0.878278
Target:  5'- aUCGGCG-CGGUGCCGGugcuuUCGGa -3'
miRNA:   3'- gAGCUGUaGCUACGGCUuccuuAGCC- -5'
12465 3' -50.4 NC_003324.1 + 38408 0.68 0.87593
Target:  5'- cCUCGugAUCGAgacgcccaaagacaUGCUGcAAGGGcUUGGg -3'
miRNA:   3'- -GAGCugUAGCU--------------ACGGC-UUCCUuAGCC- -5'
12465 3' -50.4 NC_003324.1 + 6072 0.69 0.87036
Target:  5'- aUCGcugGUCGAgaucGCCGAGGGcaAGUCGGu -3'
miRNA:   3'- gAGCug-UAGCUa---CGGCUUCC--UUAGCC- -5'
12465 3' -50.4 NC_003324.1 + 18258 0.69 0.836218
Target:  5'- -aCGACAgagccgCGAccGCUGAcGGAAUCGGc -3'
miRNA:   3'- gaGCUGUa-----GCUa-CGGCUuCCUUAGCC- -5'
12465 3' -50.4 NC_003324.1 + 13897 0.7 0.808259
Target:  5'- aUCG-CAUCGGUGUuguucucggagaCGAAGGAGUUGa -3'
miRNA:   3'- gAGCuGUAGCUACG------------GCUUCCUUAGCc -5'
12465 3' -50.4 NC_003324.1 + 56142 0.7 0.798545
Target:  5'- aUCGGCcgCuuuaugGCCGAGGG-AUCGGa -3'
miRNA:   3'- gAGCUGuaGcua---CGGCUUCCuUAGCC- -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.