miRNA display CGI


Results 1 - 20 of 21 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
11507 3' -52.3 NC_003085.1 + 9712 0.66 0.838628
Target:  5'- uGGAGCgccgGAACGCCUgugUGuccuCGGCgUCAu -3'
miRNA:   3'- -UCUCGaa--CUUGUGGA---GCu---GCCGaAGU- -5'
11507 3' -52.3 NC_003085.1 + 48385 0.66 0.80436
Target:  5'- uGAGCgcggcGAGCagcgccgcauugucuGCCUCGGCGGCg--- -3'
miRNA:   3'- uCUCGaa---CUUG---------------UGGAGCUGCCGaagu -5'
11507 3' -52.3 NC_003085.1 + 12535 0.66 0.800388
Target:  5'- gAGAGU-UGGugAUUUCGACGGCgaugUCc -3'
miRNA:   3'- -UCUCGaACUugUGGAGCUGCCGa---AGu -5'
11507 3' -52.3 NC_003085.1 + 42707 0.67 0.790327
Target:  5'- -aGGCUUGAgcggcgGCACCUcaggCGugGGCgUCGg -3'
miRNA:   3'- ucUCGAACU------UGUGGA----GCugCCGaAGU- -5'
11507 3' -52.3 NC_003085.1 + 30000 0.67 0.790327
Target:  5'- gGGAGCggcccUGGGCgGCCUUGgcgacgucguccGCGGCUUCc -3'
miRNA:   3'- -UCUCGa----ACUUG-UGGAGC------------UGCCGAAGu -5'
11507 3' -52.3 NC_003085.1 + 45956 0.67 0.780089
Target:  5'- uAGAGCUUGuacagcguCGCCUUggGGCGGCa--- -3'
miRNA:   3'- -UCUCGAACuu------GUGGAG--CUGCCGaagu -5'
11507 3' -52.3 NC_003085.1 + 37886 0.67 0.769687
Target:  5'- aGGuGCUggUGGGCACCacgcCGACGGCg--- -3'
miRNA:   3'- -UCuCGA--ACUUGUGGa---GCUGCCGaagu -5'
11507 3' -52.3 NC_003085.1 + 16704 0.67 0.769687
Target:  5'- gGGGGCUUGGG-GCUUgCGACgGGUUUCAa -3'
miRNA:   3'- -UCUCGAACUUgUGGA-GCUG-CCGAAGU- -5'
11507 3' -52.3 NC_003085.1 + 36991 0.67 0.759132
Target:  5'- uGAGCgacGGCGCCUUGAUGGggaCUUCGa -3'
miRNA:   3'- uCUCGaacUUGUGGAGCUGCC---GAAGU- -5'
11507 3' -52.3 NC_003085.1 + 48897 0.67 0.759132
Target:  5'- gGGGGCcgcccuGCACUUCGACGGCc--- -3'
miRNA:   3'- -UCUCGaacu--UGUGGAGCUGCCGaagu -5'
11507 3' -52.3 NC_003085.1 + 38210 0.68 0.737618
Target:  5'- cGGGCggcggUGGcucguGCACuCUCGACGGCagCAc -3'
miRNA:   3'- uCUCGa----ACU-----UGUG-GAGCUGCCGaaGU- -5'
11507 3' -52.3 NC_003085.1 + 24699 0.68 0.715647
Target:  5'- uGGuGC-UGGACGgCggcaUCGGCGGCUUCGc -3'
miRNA:   3'- -UCuCGaACUUGUgG----AGCUGCCGAAGU- -5'
11507 3' -52.3 NC_003085.1 + 48819 0.68 0.704523
Target:  5'- cGGuGCUcGAGCGCCUCGACGagguccgcgccaGCcUCGa -3'
miRNA:   3'- -UCuCGAaCUUGUGGAGCUGC------------CGaAGU- -5'
11507 3' -52.3 NC_003085.1 + 24420 0.69 0.670745
Target:  5'- cGAcggUGGGCACCUaCGGCGGCaUCAa -3'
miRNA:   3'- uCUcgaACUUGUGGA-GCUGCCGaAGU- -5'
11507 3' -52.3 NC_003085.1 + 36666 0.71 0.546158
Target:  5'- cAGGGCgugGAGCACCUgcccgacaaCGGCGGCa--- -3'
miRNA:   3'- -UCUCGaa-CUUGUGGA---------GCUGCCGaagu -5'
11507 3' -52.3 NC_003085.1 + 36351 0.71 0.513182
Target:  5'- -cGGCUUGGGCAUCUCGGgaguUGGCUUgCAc -3'
miRNA:   3'- ucUCGAACUUGUGGAGCU----GCCGAA-GU- -5'
11507 3' -52.3 NC_003085.1 + 9974 0.73 0.439808
Target:  5'- -cGGCUUccGAGCGCCUCGACGcGCacgUCGg -3'
miRNA:   3'- ucUCGAA--CUUGUGGAGCUGC-CGa--AGU- -5'
11507 3' -52.3 NC_003085.1 + 25785 0.73 0.429814
Target:  5'- cGGGCccgcugcgUGGACGCCUgGGCGGCgUUCGc -3'
miRNA:   3'- uCUCGa-------ACUUGUGGAgCUGCCG-AAGU- -5'
11507 3' -52.3 NC_003085.1 + 40981 0.73 0.410233
Target:  5'- cGGGCc--AGCGCCUCGGCGGcCUUCu -3'
miRNA:   3'- uCUCGaacUUGUGGAGCUGCC-GAAGu -5'
11507 3' -52.3 NC_003085.1 + 26108 0.74 0.363793
Target:  5'- uGGGGCU---GCGCCUCGGCGGCcggCGg -3'
miRNA:   3'- -UCUCGAacuUGUGGAGCUGCCGaa-GU- -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.