miRNA display CGI


Results 1 - 20 of 39 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
23879 3' -57.7 NC_005262.1 + 45972 0.67 0.637128
Target:  5'- cCCGCUCGaGGGUUG-GGACGacaGCcGCGu -3'
miRNA:   3'- -GGCGAGCaCCUAGCuCCUGC---CGcUGC- -5'
23879 3' -57.7 NC_005262.1 + 16588 0.67 0.605695
Target:  5'- gCGCgUGUGcuGGUCGAGG-CGGCGAa- -3'
miRNA:   3'- gGCGaGCAC--CUAGCUCCuGCCGCUgc -5'
23879 3' -57.7 NC_005262.1 + 56308 0.67 0.60988
Target:  5'- gCgGCUucgacaugaaggCGUGGAucgaaaagcgucuggUCGAGGGCGGCGugccccGCGa -3'
miRNA:   3'- -GgCGA------------GCACCU---------------AGCUCCUGCCGC------UGC- -5'
23879 3' -57.7 NC_005262.1 + 60692 0.67 0.616163
Target:  5'- aCGCUgGgcuucuucgcgGGcgcGUCGGGGAUGGaCGACGa -3'
miRNA:   3'- gGCGAgCa----------CC---UAGCUCCUGCC-GCUGC- -5'
23879 3' -57.7 NC_005262.1 + 27070 0.67 0.626643
Target:  5'- gCGUUCGUGcg-CGAGcuCGGCGACa -3'
miRNA:   3'- gGCGAGCACcuaGCUCcuGCCGCUGc -5'
23879 3' -57.7 NC_005262.1 + 33562 0.67 0.626643
Target:  5'- gUGCUCGacGAgcUCGAGGcCGGCGAg- -3'
miRNA:   3'- gGCGAGCacCU--AGCUCCuGCCGCUgc -5'
23879 3' -57.7 NC_005262.1 + 35706 0.67 0.626643
Target:  5'- uCCGCUCc-GGcGUCGgcGGGACGGCcACGc -3'
miRNA:   3'- -GGCGAGcaCC-UAGC--UCCUGCCGcUGC- -5'
23879 3' -57.7 NC_005262.1 + 45685 0.67 0.637128
Target:  5'- gCCGCacuUCGUGcGcAUCGAGGGcCGGCaGCc -3'
miRNA:   3'- -GGCG---AGCAC-C-UAGCUCCU-GCCGcUGc -5'
23879 3' -57.7 NC_005262.1 + 45758 0.67 0.637128
Target:  5'- cCCGCgaacgCGacgccGAUCGgcaucgcggcgaAGGGCGGCGGCGu -3'
miRNA:   3'- -GGCGa----GCac---CUAGC------------UCCUGCCGCUGC- -5'
23879 3' -57.7 NC_005262.1 + 35194 0.68 0.584829
Target:  5'- aCCGCcgCGUGGccagccuacGUCcgcaaggaugcgGAGGuCGGCGGCGc -3'
miRNA:   3'- -GGCGa-GCACC---------UAG------------CUCCuGCCGCUGC- -5'
23879 3' -57.7 NC_005262.1 + 5153 0.68 0.584829
Target:  5'- cCUGCUCGgcgcgcuGAUCGGuGACGGcCGGCGu -3'
miRNA:   3'- -GGCGAGCac-----CUAGCUcCUGCC-GCUGC- -5'
23879 3' -57.7 NC_005262.1 + 30903 0.68 0.564106
Target:  5'- gCCGCUCGcgc-UCGAGGAUGGCa--- -3'
miRNA:   3'- -GGCGAGCaccuAGCUCCUGCCGcugc -5'
23879 3' -57.7 NC_005262.1 + 43454 0.75 0.231475
Target:  5'- gCGCUUGUgcGGAUCGAGucgagccgcuucguGGCGGCGACc -3'
miRNA:   3'- gGCGAGCA--CCUAGCUC--------------CUGCCGCUGc -5'
23879 3' -57.7 NC_005262.1 + 32155 0.74 0.283624
Target:  5'- gCgGCaCGUGGAUCGAcuuccagaagGcGGCGGCGGCGg -3'
miRNA:   3'- -GgCGaGCACCUAGCU----------C-CUGCCGCUGC- -5'
23879 3' -57.7 NC_005262.1 + 40798 0.73 0.311906
Target:  5'- uCCGCUaCGgGGAUCGgcaucuacGGGGCuGCGACGg -3'
miRNA:   3'- -GGCGA-GCaCCUAGC--------UCCUGcCGCUGC- -5'
23879 3' -57.7 NC_005262.1 + 14298 0.72 0.350198
Target:  5'- gCGUUgCGUGGA-CG-GGAgGGCGGCGg -3'
miRNA:   3'- gGCGA-GCACCUaGCuCCUgCCGCUGC- -5'
23879 3' -57.7 NC_005262.1 + 4588 0.71 0.380617
Target:  5'- gCUGCUCG-GGcgUGAgcgcccgcaggaacGGGCGGUGACGg -3'
miRNA:   3'- -GGCGAGCaCCuaGCU--------------CCUGCCGCUGC- -5'
23879 3' -57.7 NC_005262.1 + 21564 0.71 0.409198
Target:  5'- gCCGC-CGccUGGAaaCGAGGGCGGCuACGg -3'
miRNA:   3'- -GGCGaGC--ACCUa-GCUCCUGCCGcUGC- -5'
23879 3' -57.7 NC_005262.1 + 22705 0.69 0.483694
Target:  5'- aCCGcCUCGcaUGGAUCGAcuGGAUGcuCGACGa -3'
miRNA:   3'- -GGC-GAGC--ACCUAGCU--CCUGCc-GCUGC- -5'
23879 3' -57.7 NC_005262.1 + 29927 0.69 0.491506
Target:  5'- aCGCUCGgcgauagcugaaGGA-CGAcccggacgcGGGCGGCGGCGa -3'
miRNA:   3'- gGCGAGCa-----------CCUaGCU---------CCUGCCGCUGC- -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.