miRNA display CGI


Results 1 - 20 of 41 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
19055 3' -57.9 NC_004684.1 + 59932 0.65 0.677348
Target:  5'- uCGGUgucCGGCCccacguGCGCGUugugcuggcggcgcUCGUGcCGCa -3'
miRNA:   3'- -GCCA---GCCGGu-----CGCGCA--------------AGUACaGCGc -5'
19055 3' -57.9 NC_004684.1 + 2053 0.66 0.669989
Target:  5'- uGGacuaCGGCCAGCGCcacgUgGUGgagCGCGc -3'
miRNA:   3'- gCCa---GCCGGUCGCGca--AgUACa--GCGC- -5'
19055 3' -57.9 NC_004684.1 + 10263 0.66 0.659449
Target:  5'- gCGGgccaaccaacUGGCCAGCGaCGccgGUGUCGCGc -3'
miRNA:   3'- -GCCa---------GCCGGUCGC-GCaagUACAGCGC- -5'
19055 3' -57.9 NC_004684.1 + 42538 0.66 0.638309
Target:  5'- uGGUCGGCguGCugacgGCGUUCGgcuucggCGUGg -3'
miRNA:   3'- gCCAGCCGguCG-----CGCAAGUaca----GCGC- -5'
19055 3' -57.9 NC_004684.1 + 30153 0.66 0.638309
Target:  5'- gCGcGUCGGCCAGUggGCGaUCAacgccGUCgGCGg -3'
miRNA:   3'- -GC-CAGCCGGUCG--CGCaAGUa----CAG-CGC- -5'
19055 3' -57.9 NC_004684.1 + 45770 0.66 0.627726
Target:  5'- uGGUCacGCCGGUGCGguaCcgGUCGUa -3'
miRNA:   3'- gCCAGc-CGGUCGCGCaa-GuaCAGCGc -5'
19055 3' -57.9 NC_004684.1 + 53022 0.67 0.617147
Target:  5'- uCGGUCaGCCAGUcgGCGUaCAccUG-CGCGg -3'
miRNA:   3'- -GCCAGcCGGUCG--CGCAaGU--ACaGCGC- -5'
19055 3' -57.9 NC_004684.1 + 53117 0.67 0.60658
Target:  5'- gCGGUguUGGUCAGCGUGaagCuguUGUCGCc -3'
miRNA:   3'- -GCCA--GCCGGUCGCGCaa-Gu--ACAGCGc -5'
19055 3' -57.9 NC_004684.1 + 53775 0.67 0.60658
Target:  5'- uGGUCGGgucccagaCCGGCGCGgcgcugggaUCggGUUGCGc -3'
miRNA:   3'- gCCAGCC--------GGUCGCGCa--------AGuaCAGCGC- -5'
19055 3' -57.9 NC_004684.1 + 52617 0.67 0.596033
Target:  5'- uGGUCaGGUCGGUGcCGggCAcGUCGCc -3'
miRNA:   3'- gCCAG-CCGGUCGC-GCaaGUaCAGCGc -5'
19055 3' -57.9 NC_004684.1 + 43496 0.67 0.585515
Target:  5'- uCGGUCGaGCCGGgGCGgUCGggaccagcGUUGUGg -3'
miRNA:   3'- -GCCAGC-CGGUCgCGCaAGUa-------CAGCGC- -5'
19055 3' -57.9 NC_004684.1 + 36006 0.67 0.575033
Target:  5'- uGGUUGGCgAGCGUGaUgGUGgacuccugCGCGa -3'
miRNA:   3'- gCCAGCCGgUCGCGCaAgUACa-------GCGC- -5'
19055 3' -57.9 NC_004684.1 + 58791 0.67 0.575033
Target:  5'- cCGGgcuuguucgaGGCCaccGGCGCGUUCAUGcUCgGCa -3'
miRNA:   3'- -GCCag--------CCGG---UCGCGCAAGUAC-AG-CGc -5'
19055 3' -57.9 NC_004684.1 + 9832 0.67 0.575033
Target:  5'- -uGUCGGCCaaccGGCGCaGcUCGgcgGUCGCGc -3'
miRNA:   3'- gcCAGCCGG----UCGCG-CaAGUa--CAGCGC- -5'
19055 3' -57.9 NC_004684.1 + 43449 0.67 0.564594
Target:  5'- uCGGUgCGGCgGGCGCGgcagCAgg-UGCGg -3'
miRNA:   3'- -GCCA-GCCGgUCGCGCaa--GUacaGCGC- -5'
19055 3' -57.9 NC_004684.1 + 31353 0.67 0.564594
Target:  5'- uCGGUCGGCCAG-GaaaUUCugGUCGCGc -3'
miRNA:   3'- -GCCAGCCGGUCgCgc-AAGuaCAGCGC- -5'
19055 3' -57.9 NC_004684.1 + 49238 0.67 0.561472
Target:  5'- gGcGUCGGCacgucgccccacagCGGCGCGUcCAUGUUgGCGg -3'
miRNA:   3'- gC-CAGCCG--------------GUCGCGCAaGUACAG-CGC- -5'
19055 3' -57.9 NC_004684.1 + 64173 0.68 0.55317
Target:  5'- aGGUCGuGCUcGCGCGcgUCccagguguaggggGUGUCGCa -3'
miRNA:   3'- gCCAGC-CGGuCGCGCa-AG-------------UACAGCGc -5'
19055 3' -57.9 NC_004684.1 + 39658 0.68 0.543875
Target:  5'- aGGUacCGGCCucCGCGUgccUCGUGcUCGCGc -3'
miRNA:   3'- gCCA--GCCGGucGCGCA---AGUAC-AGCGC- -5'
19055 3' -57.9 NC_004684.1 + 46289 0.68 0.543875
Target:  5'- gCGG-CGGCCgAGCGCGUUgCGg--CGCu -3'
miRNA:   3'- -GCCaGCCGG-UCGCGCAA-GUacaGCGc -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.