miRNA display CGI


Results 1 - 20 of 38 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
23876 3' -58.3 NC_005262.1 + 23477 0.71 0.328427
Target:  5'- aCGAAUggcugGGCGAGGUUCGCcCGCugacgcccGAGGa- -3'
miRNA:   3'- -GCUUG-----CCGCUCCAAGCG-GCG--------CUCCag -5'
23876 3' -58.3 NC_005262.1 + 33806 0.66 0.621507
Target:  5'- gCGGGCaacguccuccaGGaCGAGGaucacaUUCGCUGgGAGGUCc -3'
miRNA:   3'- -GCUUG-----------CC-GCUCC------AAGCGGCgCUCCAG- -5'
23876 3' -58.3 NC_005262.1 + 8267 0.66 0.619391
Target:  5'- aGcAGCGGcCGAGGaagcugcccgcgUCGCuCGCGAGG-Cg -3'
miRNA:   3'- gC-UUGCC-GCUCCa-----------AGCG-GCGCUCCaG- -5'
23876 3' -58.3 NC_005262.1 + 16493 0.67 0.568873
Target:  5'- aCGAGCugGGCGAGGcgcugggCGCUGCGcuGGGg- -3'
miRNA:   3'- -GCUUG--CCGCUCCaa-----GCGGCGC--UCCag -5'
23876 3' -58.3 NC_005262.1 + 4615 0.68 0.487438
Target:  5'- aCGGGCGGUGAcGGaacUCGCUGUG-GGUUu -3'
miRNA:   3'- -GCUUGCCGCU-CCa--AGCGGCGCuCCAG- -5'
23876 3' -58.3 NC_005262.1 + 49230 0.68 0.477628
Target:  5'- -cGGCGGCGcgcaGUcCGCgCGCGAGGUCc -3'
miRNA:   3'- gcUUGCCGCuc--CAaGCG-GCGCUCCAG- -5'
23876 3' -58.3 NC_005262.1 + 61285 0.68 0.467916
Target:  5'- uCGAuCGGCGcGGccaGCCucGCGGGGUCg -3'
miRNA:   3'- -GCUuGCCGCuCCaagCGG--CGCUCCAG- -5'
23876 3' -58.3 NC_005262.1 + 25686 0.69 0.420967
Target:  5'- -cGACGGcCGAGG---GCCGCGAGGg- -3'
miRNA:   3'- gcUUGCC-GCUCCaagCGGCGCUCCag -5'
23876 3' -58.3 NC_005262.1 + 16798 0.71 0.336188
Target:  5'- cCGGACGGCGAGcucauggaGUUCcugcacgacaGCCGCGAcuucgugaaGGUCg -3'
miRNA:   3'- -GCUUGCCGCUC--------CAAG----------CGGCGCU---------CCAG- -5'
23876 3' -58.3 NC_005262.1 + 50948 0.67 0.5481
Target:  5'- gCGAAgcuCGGCacGAcGGUUC-CCGCGAGGcCg -3'
miRNA:   3'- -GCUU---GCCG--CU-CCAAGcGGCGCUCCaG- -5'
23876 3' -58.3 NC_005262.1 + 13397 0.67 0.558459
Target:  5'- --cGCGGCGcuGaUCGCCGCGcGGUUc -3'
miRNA:   3'- gcuUGCCGCucCaAGCGGCGCuCCAG- -5'
23876 3' -58.3 NC_005262.1 + 17256 0.67 0.579334
Target:  5'- gGAGCGGCGGccggCGCCGCGcuGGGc- -3'
miRNA:   3'- gCUUGCCGCUccaaGCGGCGC--UCCag -5'
23876 3' -58.3 NC_005262.1 + 29362 0.67 0.579334
Target:  5'- gCGAACGGCagaaccuucguGAGGaaUUCGU--CGAGGUCg -3'
miRNA:   3'- -GCUUGCCG-----------CUCC--AAGCGgcGCUCCAG- -5'
23876 3' -58.3 NC_005262.1 + 10635 0.66 0.600371
Target:  5'- gCGAAgGGCG-GGUugccgaUCGCCGCGucGa- -3'
miRNA:   3'- -GCUUgCCGCuCCA------AGCGGCGCucCag -5'
23876 3' -58.3 NC_005262.1 + 186 0.66 0.600371
Target:  5'- uCGGACGGCuucauGGUccaCGCCGgCGGGGg- -3'
miRNA:   3'- -GCUUGCCGcu---CCAa--GCGGC-GCUCCag -5'
23876 3' -58.3 NC_005262.1 + 54842 0.66 0.632092
Target:  5'- gGAugGGUGGaGUgcgUCGCCcgcGCGAGgGUCa -3'
miRNA:   3'- gCUugCCGCUcCA---AGCGG---CGCUC-CAG- -5'
23876 3' -58.3 NC_005262.1 + 34976 0.66 0.632092
Target:  5'- uCGAGCGcgacGCGAGcucgagaugCGCgggCGCGAGGUCa -3'
miRNA:   3'- -GCUUGC----CGCUCcaa------GCG---GCGCUCCAG- -5'
23876 3' -58.3 NC_005262.1 + 43034 0.66 0.632092
Target:  5'- gCGAucucgUGGCGcugGGGUUCGaCCGggcaGGGGUCg -3'
miRNA:   3'- -GCUu----GCCGC---UCCAAGC-GGCg---CUCCAG- -5'
23876 3' -58.3 NC_005262.1 + 16024 0.66 0.636327
Target:  5'- uCGAgcACGGgGAgcccgcgcgaugccgGGUUCGCCGCGGccGG-Cg -3'
miRNA:   3'- -GCU--UGCCgCU---------------CCAAGCGGCGCU--CCaG- -5'
23876 3' -58.3 NC_005262.1 + 58334 1.1 0.000631
Target:  5'- uCGAACGGCGAGGUUCGCCGCGAGGUCa -3'
miRNA:   3'- -GCUUGCCGCUCCAAGCGGCGCUCCAG- -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.