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
23498 3' -55.2 NC_005259.1 + 23632 0.79 0.179029
Target:  5'- aCGGcucGGUGUgguuucgGCCCGCcgacGGCGACGGCu -3'
miRNA:   3'- gGCU---UCACAa------UGGGCGu---CCGCUGCCG- -5'
23498 3' -55.2 NC_005259.1 + 34671 0.76 0.276268
Target:  5'- uCUGAGG-GUUGCCCGCAuuGGCGcuGCGGa -3'
miRNA:   3'- -GGCUUCaCAAUGGGCGU--CCGC--UGCCg -5'
23498 3' -55.2 NC_005259.1 + 67108 0.75 0.311961
Target:  5'- uCCGAGGUGUacUGCCCGCu-GCGGuCGuGCg -3'
miRNA:   3'- -GGCUUCACA--AUGGGCGucCGCU-GC-CG- -5'
23498 3' -55.2 NC_005259.1 + 66250 0.75 0.319507
Target:  5'- aUCGAcgcAGcGcgGCCCGCgccGGGCGGCGGCu -3'
miRNA:   3'- -GGCU---UCaCaaUGGGCG---UCCGCUGCCG- -5'
23498 3' -55.2 NC_005259.1 + 54489 0.74 0.359272
Target:  5'- gCCGAGG-GUcAUCgGCGGGCauGGCGGCg -3'
miRNA:   3'- -GGCUUCaCAaUGGgCGUCCG--CUGCCG- -5'
23498 3' -55.2 NC_005259.1 + 54182 0.73 0.402369
Target:  5'- uUGAucuuGGUG--GCCCuCAGGCGGCGGCc -3'
miRNA:   3'- gGCU----UCACaaUGGGcGUCCGCUGCCG- -5'
23498 3' -55.2 NC_005259.1 + 32895 0.73 0.411374
Target:  5'- aCCGggGgcgaggGUgagccacccgGCCCGCucGGGCG-CGGCg -3'
miRNA:   3'- -GGCuuCa-----CAa---------UGGGCG--UCCGCuGCCG- -5'
23498 3' -55.2 NC_005259.1 + 55041 0.72 0.445748
Target:  5'- gCCGAGGUGcUUGCCuCGguGGCaGucugcgcgagaucaGCGGCu -3'
miRNA:   3'- -GGCUUCAC-AAUGG-GCguCCG-C--------------UGCCG- -5'
23498 3' -55.2 NC_005259.1 + 2129 0.72 0.457237
Target:  5'- gCCGAGGUcacgcagACCCGCAcGGUGcuggccaGCGGCg -3'
miRNA:   3'- -GGCUUCAcaa----UGGGCGU-CCGC-------UGCCG- -5'
23498 3' -55.2 NC_005259.1 + 17472 0.72 0.467907
Target:  5'- aCCGuGGUGacGCCCggccauGCGGGCaagGACGGCg -3'
miRNA:   3'- -GGCuUCACaaUGGG------CGUCCG---CUGCCG- -5'
23498 3' -55.2 NC_005259.1 + 64825 0.71 0.517913
Target:  5'- aUGAGcGUGUggugacggACCCuGCuGGCGAUGGCc -3'
miRNA:   3'- gGCUU-CACAa-------UGGG-CGuCCGCUGCCG- -5'
23498 3' -55.2 NC_005259.1 + 51652 0.7 0.58048
Target:  5'- gCGAAcggGUUGCCgCGCGGGCGcguCGGg -3'
miRNA:   3'- gGCUUca-CAAUGG-GCGUCCGCu--GCCg -5'
23498 3' -55.2 NC_005259.1 + 68572 0.69 0.612403
Target:  5'- aCCGAGGUGgacCUCGUAucCGGCGGCc -3'
miRNA:   3'- -GGCUUCACaauGGGCGUccGCUGCCG- -5'
23498 3' -55.2 NC_005259.1 + 64498 0.69 0.623088
Target:  5'- aCGGgucAG-GUUAUCCGCAcGGCGuGCGGUc -3'
miRNA:   3'- gGCU---UCaCAAUGGGCGU-CCGC-UGCCG- -5'
23498 3' -55.2 NC_005259.1 + 905 0.69 0.630572
Target:  5'- aCCGAGGUGgUGCCCggcgaucaccugcuGCuGcGCGACaGCg -3'
miRNA:   3'- -GGCUUCACaAUGGG--------------CGuC-CGCUGcCG- -5'
23498 3' -55.2 NC_005259.1 + 47475 0.69 0.642333
Target:  5'- aCCGAGGUGaucgcgucaCCG-AGGCG-CGGCa -3'
miRNA:   3'- -GGCUUCACaaug-----GGCgUCCGCuGCCG- -5'
23498 3' -55.2 NC_005259.1 + 63862 0.69 0.65515
Target:  5'- gCGAGGUGgccgGCUgGCcuuGCGugGGCg -3'
miRNA:   3'- gGCUUCACaa--UGGgCGuc-CGCugCCG- -5'
23498 3' -55.2 NC_005259.1 + 50070 0.69 0.65515
Target:  5'- aCGggGUGUagACCUGCGGcagcucgcCGAUGGUg -3'
miRNA:   3'- gGCuuCACAa-UGGGCGUCc-------GCUGCCG- -5'
23498 3' -55.2 NC_005259.1 + 60626 0.69 0.66581
Target:  5'- gCGAGGUGUggaacUGCgCGUAGuuCGACGGUg -3'
miRNA:   3'- gGCUUCACA-----AUGgGCGUCc-GCUGCCG- -5'
23498 3' -55.2 NC_005259.1 + 17328 0.68 0.673255
Target:  5'- cCCGAGGgugUGCCgGUcaacgucgccgucgAGGuCGGCGGCu -3'
miRNA:   3'- -GGCUUCacaAUGGgCG--------------UCC-GCUGCCG- -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.