miRNA display CGI


Results 1 - 20 of 66 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
28027 3' -56.4 NC_005887.1 + 26025 1.12 0.000372
Target:  5'- gCAGUUCGCGGCGACCUCGAACAGGCCg -3'
miRNA:   3'- -GUCAAGCGCCGCUGGAGCUUGUCCGG- -5'
28027 3' -56.4 NC_005887.1 + 343 0.81 0.07124
Target:  5'- ----cCGCGGCGACaCUCGAcgugggccGCAGGCCg -3'
miRNA:   3'- gucaaGCGCCGCUG-GAGCU--------UGUCCGG- -5'
28027 3' -56.4 NC_005887.1 + 1591 0.78 0.103488
Target:  5'- gGGUggGUGGCGGCCUCGAACc-GCCa -3'
miRNA:   3'- gUCAagCGCCGCUGGAGCUUGucCGG- -5'
28027 3' -56.4 NC_005887.1 + 20443 0.77 0.122295
Target:  5'- aCAGUcgUCGUGGCGGCaagCGAgauacgcGCGGGCCa -3'
miRNA:   3'- -GUCA--AGCGCCGCUGga-GCU-------UGUCCGG- -5'
28027 3' -56.4 NC_005887.1 + 14201 0.76 0.145038
Target:  5'- ---gUCGgGcGCGGCCUCGGACAGGgCg -3'
miRNA:   3'- gucaAGCgC-CGCUGGAGCUUGUCCgG- -5'
28027 3' -56.4 NC_005887.1 + 1592 0.75 0.169715
Target:  5'- gCGGcgCGCGGCGcgccaacggcgaucGCCUCGAcGCGGGCg -3'
miRNA:   3'- -GUCaaGCGCCGC--------------UGGAGCU-UGUCCGg -5'
28027 3' -56.4 NC_005887.1 + 29486 0.74 0.206757
Target:  5'- aCAGcacgaugUCGUagccGGCGGCCUCGAcgGCGGGCg -3'
miRNA:   3'- -GUCa------AGCG----CCGCUGGAGCU--UGUCCGg -5'
28027 3' -56.4 NC_005887.1 + 24599 0.74 0.218062
Target:  5'- gGGUUCGCGGCGAUgaUCuuGC-GGCCg -3'
miRNA:   3'- gUCAAGCGCCGCUGg-AGcuUGuCCGG- -5'
28027 3' -56.4 NC_005887.1 + 27983 0.72 0.261837
Target:  5'- -----aGCGGCGA-CUCGAACAGGUg -3'
miRNA:   3'- gucaagCGCCGCUgGAGCUUGUCCGg -5'
28027 3' -56.4 NC_005887.1 + 39835 0.71 0.304829
Target:  5'- gCAGcgUGCGGCaGuCCgggugcaCGAGCAGGCCg -3'
miRNA:   3'- -GUCaaGCGCCG-CuGGa------GCUUGUCCGG- -5'
28027 3' -56.4 NC_005887.1 + 24341 0.71 0.320317
Target:  5'- aAGcgCGCGGCGGuCCcauUCGGuCAGGCUg -3'
miRNA:   3'- gUCaaGCGCCGCU-GG---AGCUuGUCCGG- -5'
28027 3' -56.4 NC_005887.1 + 13624 0.71 0.336387
Target:  5'- gCGGcgCGCGGCGGCCgcacucagcCGAGCAGcaCCg -3'
miRNA:   3'- -GUCaaGCGCCGCUGGa--------GCUUGUCc-GG- -5'
28027 3' -56.4 NC_005887.1 + 36991 0.7 0.34464
Target:  5'- gAGcUCGcCGGCGAgCaCGcGCAGGCCg -3'
miRNA:   3'- gUCaAGC-GCCGCUgGaGCuUGUCCGG- -5'
28027 3' -56.4 NC_005887.1 + 31696 0.7 0.34464
Target:  5'- uGGUUCGuCGGCaGaACCUCGGACGcgugcGGCg -3'
miRNA:   3'- gUCAAGC-GCCG-C-UGGAGCUUGU-----CCGg -5'
28027 3' -56.4 NC_005887.1 + 39435 0.7 0.353037
Target:  5'- gCAGcUUgGCGGCGGCgUCGuucGCGgcGGCCg -3'
miRNA:   3'- -GUC-AAgCGCCGCUGgAGCu--UGU--CCGG- -5'
28027 3' -56.4 NC_005887.1 + 40155 0.7 0.360718
Target:  5'- uCGGUUUGCGcugcccgaucaccGCGGCCggCGu-CAGGCCg -3'
miRNA:   3'- -GUCAAGCGC-------------CGCUGGa-GCuuGUCCGG- -5'
28027 3' -56.4 NC_005887.1 + 892 0.7 0.388053
Target:  5'- gCAGauccucgCGCGGCGugC-CGAGCAGcGCa -3'
miRNA:   3'- -GUCaa-----GCGCCGCugGaGCUUGUC-CGg -5'
28027 3' -56.4 NC_005887.1 + 15428 0.69 0.397156
Target:  5'- uGGUUCGUcgacGGCGGCCagCGAcuCGGGCg -3'
miRNA:   3'- gUCAAGCG----CCGCUGGa-GCUu-GUCCGg -5'
28027 3' -56.4 NC_005887.1 + 16166 0.69 0.397156
Target:  5'- gAGUgCGCGaGCGAUCgaggCGAACcugcgcgaagAGGCCg -3'
miRNA:   3'- gUCAaGCGC-CGCUGGa---GCUUG----------UCCGG- -5'
28027 3' -56.4 NC_005887.1 + 11807 0.69 0.403609
Target:  5'- uCGGUUCguacgcuaaggcagGCGGCGGCCuguucUCGAgcagcACGGGCg -3'
miRNA:   3'- -GUCAAG--------------CGCCGCUGG-----AGCU-----UGUCCGg -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.