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 + 40129 1.1 0.003354
Target:  5'- uCUCGACAUCGAUGCCGAAGGAAUCGGc -3'
miRNA:   3'- -GAGCUGUAGCUACGGCUUCCUUAGCC- -5'
12465 3' -50.4 NC_003324.1 + 21597 0.81 0.253461
Target:  5'- uUCGGCGUCGA-GCCGAacAGGAAcCGGa -3'
miRNA:   3'- gAGCUGUAGCUaCGGCU--UCCUUaGCC- -5'
12465 3' -50.4 NC_003324.1 + 40204 0.78 0.387336
Target:  5'- uUCGGCAUCGAUGUCGAGacgcuGGAAUggUGGa -3'
miRNA:   3'- gAGCUGUAGCUACGGCUU-----CCUUA--GCC- -5'
12465 3' -50.4 NC_003324.1 + 8739 0.75 0.560091
Target:  5'- uCUUGGCggCGGUGUCGGAGaAGUCGGu -3'
miRNA:   3'- -GAGCUGuaGCUACGGCUUCcUUAGCC- -5'
12465 3' -50.4 NC_003324.1 + 40264 0.75 0.561189
Target:  5'- gUCGGCAUCGcucggcugauguuccUGUCGAAGGuGUCGGa -3'
miRNA:   3'- gAGCUGUAGCu--------------ACGGCUUCCuUAGCC- -5'
12465 3' -50.4 NC_003324.1 + 6853 0.72 0.682424
Target:  5'- -cCGACAUCGAUGUCccAGGAcgCGa -3'
miRNA:   3'- gaGCUGUAGCUACGGcuUCCUuaGCc -5'
12465 3' -50.4 NC_003324.1 + 34495 0.72 0.726171
Target:  5'- -cCGACAUcacCGAUGCCGA-GGAcggCGGc -3'
miRNA:   3'- gaGCUGUA---GCUACGGCUuCCUua-GCC- -5'
12465 3' -50.4 NC_003324.1 + 26200 0.71 0.758009
Target:  5'- gUCGAgAUCaGGUaGCCGAAGGcccguUCGGg -3'
miRNA:   3'- gAGCUgUAG-CUA-CGGCUUCCuu---AGCC- -5'
12465 3' -50.4 NC_003324.1 + 34419 0.7 0.787652
Target:  5'- cCUCGGCAUCGGUgaugucgGCCGAcGGcacAUUGGc -3'
miRNA:   3'- -GAGCUGUAGCUA-------CGGCUuCCu--UAGCC- -5'
12465 3' -50.4 NC_003324.1 + 56142 0.7 0.798545
Target:  5'- aUCGGCcgCuuuaugGCCGAGGG-AUCGGa -3'
miRNA:   3'- gAGCUGuaGcua---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 + 18258 0.69 0.836218
Target:  5'- -aCGACAgagccgCGAccGCUGAcGGAAUCGGc -3'
miRNA:   3'- gaGCUGUa-----GCUa-CGGCUuCCUUAGCC- -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 + 38408 0.68 0.87593
Target:  5'- cCUCGugAUCGAgacgcccaaagacaUGCUGcAAGGGcUUGGg -3'
miRNA:   3'- -GAGCugUAGCU--------------ACGGC-UUCCUuAGCC- -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 + 33794 0.68 0.885934
Target:  5'- gCUCGAguCAUCGucaCCGAAGG-AUUGGa -3'
miRNA:   3'- -GAGCU--GUAGCuacGGCUUCCuUAGCC- -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 + 23770 0.67 0.911898
Target:  5'- gUCGACAUCGAUgugaagcccggcgcGCCGu-GGAuacCGGc -3'
miRNA:   3'- gAGCUGUAGCUA--------------CGGCuuCCUua-GCC- -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 + 38369 0.67 0.920111
Target:  5'- gUCGcCGUCG-UGCgGGAGGAAgUGGu -3'
miRNA:   3'- gAGCuGUAGCuACGgCUUCCUUaGCC- -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.