miRNA display CGI


Results 1 - 20 of 90 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
11941 5' -64.4 NC_003278.1 + 2339 0.66 0.22416
Target:  5'- gGCCgaacgGGCGGUGGUa-CGaGCCGCcGCUg -3'
miRNA:   3'- gCGG-----CCGCUACCGgaGC-CGGCGuCGG- -5'
11941 5' -64.4 NC_003278.1 + 13938 0.66 0.216286
Target:  5'- aCGCCGGCGggGgucuguuGCCaccacucgaggaugUCGGUCaGCgAGCCg -3'
miRNA:   3'- -GCGGCCGCuaC-------CGG--------------AGCCGG-CG-UCGG- -5'
11941 5' -64.4 NC_003278.1 + 7511 0.66 0.212984
Target:  5'- uCGCCcaGCGcUGGUCgCGGCgGUAGUCg -3'
miRNA:   3'- -GCGGc-CGCuACCGGaGCCGgCGUCGG- -5'
11941 5' -64.4 NC_003278.1 + 9841 0.66 0.207577
Target:  5'- gGUCGaGCGuaucggccUGGCCUgGGCCGagugcGCCg -3'
miRNA:   3'- gCGGC-CGCu-------ACCGGAgCCGGCgu---CGG- -5'
11941 5' -64.4 NC_003278.1 + 21653 0.66 0.205979
Target:  5'- gCGCCGGCGccaucggugcccUGGUgCUCGGCgccagcgccccggCGCAGgCCa -3'
miRNA:   3'- -GCGGCCGCu-----------ACCG-GAGCCG-------------GCGUC-GG- -5'
11941 5' -64.4 NC_003278.1 + 17295 0.66 0.20229
Target:  5'- aCGCCGcCGAUGaCCgcgcuaUUGGUCGCGGCUu -3'
miRNA:   3'- -GCGGCcGCUACcGG------AGCCGGCGUCGG- -5'
11941 5' -64.4 NC_003278.1 + 21486 0.66 0.20229
Target:  5'- gGCCGGCccgcugGGCgugauugcacguCUCGGCCaaGGCCu -3'
miRNA:   3'- gCGGCCGcua---CCG------------GAGCCGGcgUCGG- -5'
11941 5' -64.4 NC_003278.1 + 18978 0.66 0.201767
Target:  5'- -aCCGGC-AUGGaCC-CGGCCgaccuccuugccuGCGGCCa -3'
miRNA:   3'- gcGGCCGcUACC-GGaGCCGG-------------CGUCGG- -5'
11941 5' -64.4 NC_003278.1 + 17379 0.66 0.200208
Target:  5'- aCGCCGaggaugcGCGGUaccacgcccaagcgGGCCUUGGCgGCaagcaaGGCCu -3'
miRNA:   3'- -GCGGC-------CGCUA--------------CCGGAGCCGgCG------UCGG- -5'
11941 5' -64.4 NC_003278.1 + 11137 0.66 0.19712
Target:  5'- uGCCGGCGA-GGUUgcaGGCaauGCAGUUg -3'
miRNA:   3'- gCGGCCGCUaCCGGag-CCGg--CGUCGG- -5'
11941 5' -64.4 NC_003278.1 + 32101 0.66 0.19712
Target:  5'- aGCCuGCucGGUGGCUUCGGCUaC-GCCg -3'
miRNA:   3'- gCGGcCG--CUACCGGAGCCGGcGuCGG- -5'
11941 5' -64.4 NC_003278.1 + 18571 0.66 0.196609
Target:  5'- gGCUGGgcgucacccauuuCGAUGGUCUCGuGCCG--GCCg -3'
miRNA:   3'- gCGGCC-------------GCUACCGGAGC-CGGCguCGG- -5'
11941 5' -64.4 NC_003278.1 + 21369 0.67 0.192065
Target:  5'- aGCCGGCGAgcaGGCCguucaccaGGCCcuggacgaucauGUuGCCg -3'
miRNA:   3'- gCGGCCGCUa--CCGGag------CCGG------------CGuCGG- -5'
11941 5' -64.4 NC_003278.1 + 7980 0.67 0.192065
Target:  5'- gGCCGcGCcaucaugGGCCUCGGCCugGGCg -3'
miRNA:   3'- gCGGC-CGcua----CCGGAGCCGGcgUCGg -5'
11941 5' -64.4 NC_003278.1 + 33012 0.67 0.189087
Target:  5'- gCGCCGGCGGauUGGUCgaacccaacuacGCCGUaguGGCCg -3'
miRNA:   3'- -GCGGCCGCU--ACCGGagc---------CGGCG---UCGG- -5'
11941 5' -64.4 NC_003278.1 + 16556 0.67 0.187124
Target:  5'- uCGCUGGCGAggaUGGaCagcCGGUCGCcacGCCa -3'
miRNA:   3'- -GCGGCCGCU---ACC-Gga-GCCGGCGu--CGG- -5'
11941 5' -64.4 NC_003278.1 + 10356 0.67 0.187124
Target:  5'- uCGCCaacGGCGAgcugcUGGCCgagUGGaCGCcGCCg -3'
miRNA:   3'- -GCGG---CCGCU-----ACCGGa--GCCgGCGuCGG- -5'
11941 5' -64.4 NC_003278.1 + 21528 0.67 0.182296
Target:  5'- gGUCaGCGcgGGCCgucaGGCUGUcGCCg -3'
miRNA:   3'- gCGGcCGCuaCCGGag--CCGGCGuCGG- -5'
11941 5' -64.4 NC_003278.1 + 22360 0.67 0.182296
Target:  5'- uGCCGGCGGUaccgaGGaCCgagccgagcagaUCGG-UGCGGCCg -3'
miRNA:   3'- gCGGCCGCUA-----CC-GG------------AGCCgGCGUCGG- -5'
11941 5' -64.4 NC_003278.1 + 18743 0.67 0.182296
Target:  5'- gGCCGGCGGgaagGGauuacaGGCCGaUGGCCu -3'
miRNA:   3'- gCGGCCGCUa---CCggag--CCGGC-GUCGG- -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.