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 + 41523 0.68 0.474651
Target:  5'- --cUUCGCGGCcgcGAUCgcgCGAGCAuGGCUg -3'
miRNA:   3'- gucAAGCGCCG---CUGGa--GCUUGU-CCGG- -5'
28027 3' -56.4 NC_005887.1 + 40813 0.66 0.613832
Target:  5'- cCAGUccuUCGCGGU--CgUCGAcaGCAGGUCc -3'
miRNA:   3'- -GUCA---AGCGCCGcuGgAGCU--UGUCCGG- -5'
28027 3' -56.4 NC_005887.1 + 40798 0.67 0.537415
Target:  5'- aGGUUCGUGGCGGCgacgcgccgCUCGAcgaugACgAGGUg -3'
miRNA:   3'- gUCAAGCGCCGCUG---------GAGCU-----UG-UCCGg -5'
28027 3' -56.4 NC_005887.1 + 40333 0.67 0.537415
Target:  5'- -cGUUCGCcGCcgaaauggacuGGCCgUCGAGCGcGGCCg -3'
miRNA:   3'- guCAAGCGcCG-----------CUGG-AGCUUGU-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 + 39835 0.71 0.304829
Target:  5'- gCAGcgUGCGGCaGuCCgggugcaCGAGCAGGCCg -3'
miRNA:   3'- -GUCaaGCGCCG-CuGGa------GCUUGUCCGG- -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 + 38214 0.68 0.46454
Target:  5'- cCAG-UCGCGcGCaGCCUUGcGCGuGGCCg -3'
miRNA:   3'- -GUCaAGCGC-CGcUGGAGCuUGU-CCGG- -5'
28027 3' -56.4 NC_005887.1 + 38099 0.66 0.580809
Target:  5'- gCAGUUCagacuGCGuGCGGCCgagcgucggcgCGAGCAGcacGCCu -3'
miRNA:   3'- -GUCAAG-----CGC-CGCUGGa----------GCUUGUC---CGG- -5'
28027 3' -56.4 NC_005887.1 + 37533 0.66 0.613832
Target:  5'- uGGUUggCGCGGCagaacugcgcgaGAUCcgCGAGCAcGGCCu -3'
miRNA:   3'- gUCAA--GCGCCG------------CUGGa-GCUUGU-CCGG- -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 + 34722 0.67 0.530996
Target:  5'- gCGGUgCGCGGCGAuguacauguugcCUUCGAAgccgucgaaguccuuCAGGUCg -3'
miRNA:   3'- -GUCAaGCGCCGCU------------GGAGCUU---------------GUCCGG- -5'
28027 3' -56.4 NC_005887.1 + 34524 0.67 0.537415
Target:  5'- ---gUCGCuGCGACCaCGGGCuuuuGGGCCc -3'
miRNA:   3'- gucaAGCGcCGCUGGaGCUUG----UCCGG- -5'
28027 3' -56.4 NC_005887.1 + 33829 0.67 0.505615
Target:  5'- uCAGgucggCGCGGCGAUCgaaCGcauGCAGGgCg -3'
miRNA:   3'- -GUCaa---GCGCCGCUGGa--GCu--UGUCCgG- -5'
28027 3' -56.4 NC_005887.1 + 33466 0.67 0.56334
Target:  5'- aGGUcCGCGagcgcguacggcgucGCGAUCUCGA-CGGGCg -3'
miRNA:   3'- gUCAaGCGC---------------CGCUGGAGCUuGUCCGg -5'
28027 3' -56.4 NC_005887.1 + 33297 0.67 0.526732
Target:  5'- ---gUCGCuguucaCGGCCgCGAACGGGCCg -3'
miRNA:   3'- gucaAGCGcc----GCUGGaGCUUGUCCGG- -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 + 31117 0.68 0.463535
Target:  5'- ---cUCGCagagcagGGCGAgCUugcCGGGCAGGCCg -3'
miRNA:   3'- gucaAGCG-------CCGCUgGA---GCUUGUCCGG- -5'
28027 3' -56.4 NC_005887.1 + 31035 0.67 0.526732
Target:  5'- gCGGUU-GCGGCGcucGCUgcCGAGCcGGCCg -3'
miRNA:   3'- -GUCAAgCGCCGC---UGGa-GCUUGuCCGG- -5'
28027 3' -56.4 NC_005887.1 + 29850 0.67 0.537415
Target:  5'- gAGgaugUCGCaGGCGAugaacacguCCUgCG-GCAGGCCg -3'
miRNA:   3'- gUCa---AGCG-CCGCU---------GGA-GCuUGUCCGG- -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.