miRNA display CGI


Results 1 - 20 of 68 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
28016 3' -57.5 NC_005887.1 + 32270 1.13 0.000279
Target:  5'- gCCGCCCACACGACGGAAUGCGGCUCCu -3'
miRNA:   3'- -GGCGGGUGUGCUGCCUUACGCCGAGG- -5'
28016 3' -57.5 NC_005887.1 + 13395 0.76 0.140944
Target:  5'- -gGCCgGCGCGGCGGAcgucgGCGGCaagCCg -3'
miRNA:   3'- ggCGGgUGUGCUGCCUua---CGCCGa--GG- -5'
28016 3' -57.5 NC_005887.1 + 32012 0.75 0.152971
Target:  5'- gCGUCCACGuagaaGGCGGAcgauUGCGGCUCg -3'
miRNA:   3'- gGCGGGUGUg----CUGCCUu---ACGCCGAGg -5'
28016 3' -57.5 NC_005887.1 + 1580 0.75 0.157183
Target:  5'- aCCGCCgGCuCGGCGGcgcGCGGCgcgCCa -3'
miRNA:   3'- -GGCGGgUGuGCUGCCuuaCGCCGa--GG- -5'
28016 3' -57.5 NC_005887.1 + 33383 0.75 0.165923
Target:  5'- gCGCCgGCGCGGCaGGAUGaGGCUCa -3'
miRNA:   3'- gGCGGgUGUGCUGcCUUACgCCGAGg -5'
28016 3' -57.5 NC_005887.1 + 14145 0.74 0.189701
Target:  5'- aCCGCCgagaCGCGCGGCGcuGAUGCGGCgcacagCCc -3'
miRNA:   3'- -GGCGG----GUGUGCUGCc-UUACGCCGa-----GG- -5'
28016 3' -57.5 NC_005887.1 + 24872 0.73 0.227986
Target:  5'- aCCGUCCAgGCGGCGGccGAUGCcgcgcGCUCg -3'
miRNA:   3'- -GGCGGGUgUGCUGCC--UUACGc----CGAGg -5'
28016 3' -57.5 NC_005887.1 + 1474 0.73 0.233961
Target:  5'- -aGCCCgACGcCGACGGcGUGCGGCg-- -3'
miRNA:   3'- ggCGGG-UGU-GCUGCCuUACGCCGagg -5'
28016 3' -57.5 NC_005887.1 + 37418 0.72 0.240067
Target:  5'- aCUGCCUGCACGccagguGCGGAGUggagcGCGGCgcuugCCu -3'
miRNA:   3'- -GGCGGGUGUGC------UGCCUUA-----CGCCGa----GG- -5'
28016 3' -57.5 NC_005887.1 + 25492 0.72 0.250752
Target:  5'- gCCGUCCGCGCcGCGGuacaccucgcggauGAUGuCGcGCUCCa -3'
miRNA:   3'- -GGCGGGUGUGcUGCC--------------UUAC-GC-CGAGG- -5'
28016 3' -57.5 NC_005887.1 + 14878 0.72 0.265828
Target:  5'- gCGCaCCGCGCGGCaGAAUGCGccaGCUgCu -3'
miRNA:   3'- gGCG-GGUGUGCUGcCUUACGC---CGAgG- -5'
28016 3' -57.5 NC_005887.1 + 8057 0.71 0.278829
Target:  5'- gCCGCCCGCagucagccgcacgGCGACGGcAUGCGcaagCCg -3'
miRNA:   3'- -GGCGGGUG-------------UGCUGCCuUACGCcga-GG- -5'
28016 3' -57.5 NC_005887.1 + 4754 0.71 0.301119
Target:  5'- aCGCgCGCACuGACGaGAUccgaauuccgccGCGGCUCCg -3'
miRNA:   3'- gGCGgGUGUG-CUGCcUUA------------CGCCGAGG- -5'
28016 3' -57.5 NC_005887.1 + 30983 0.7 0.316216
Target:  5'- uUCGCCCACuguuCGGggUGCGuCUCUc -3'
miRNA:   3'- -GGCGGGUGugcuGCCuuACGCcGAGG- -5'
28016 3' -57.5 NC_005887.1 + 14753 0.7 0.316216
Target:  5'- gCGCCUucgACACGACGcucGAcgGCGcGCUCg -3'
miRNA:   3'- gGCGGG---UGUGCUGC---CUuaCGC-CGAGg -5'
28016 3' -57.5 NC_005887.1 + 25402 0.7 0.323975
Target:  5'- gCCGCCCGCGCGGuuGAA-GC-GCUCa -3'
miRNA:   3'- -GGCGGGUGUGCUgcCUUaCGcCGAGg -5'
28016 3' -57.5 NC_005887.1 + 618 0.7 0.331876
Target:  5'- -aGCCCGCGCGcCGGGAU-CGGaucgCCg -3'
miRNA:   3'- ggCGGGUGUGCuGCCUUAcGCCga--GG- -5'
28016 3' -57.5 NC_005887.1 + 14680 0.7 0.331876
Target:  5'- gCUGcCCCGCACGAuCGGGcucGUcGCGGCgggcgggCCg -3'
miRNA:   3'- -GGC-GGGUGUGCU-GCCU---UA-CGCCGa------GG- -5'
28016 3' -57.5 NC_005887.1 + 41587 0.7 0.331876
Target:  5'- cCUGUCgGCcaGCGGCGGcccaGGUGCGGCggCCg -3'
miRNA:   3'- -GGCGGgUG--UGCUGCC----UUACGCCGa-GG- -5'
28016 3' -57.5 NC_005887.1 + 36660 0.69 0.364029
Target:  5'- gCGCCCAUcuuuuCGAUGGAuugccagaauucgGUGuCGGCUuCCa -3'
miRNA:   3'- gGCGGGUGu----GCUGCCU-------------UAC-GCCGA-GG- -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.