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
28462 3' -52.9 NC_005946.1 + 41515 0.78 0.392753
Target:  5'- aGCCUgCACCUCUUU--GCGaUgGGGCCCg -3'
miRNA:   3'- -CGGA-GUGGAGGAAuuUGC-AgUCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 71285 0.74 0.557848
Target:  5'- aGCCUCugguuguCCUCCgUGGACGUCcccGcGCCCg -3'
miRNA:   3'- -CGGAGu------GGAGGaAUUUGCAGu--C-CGGG- -5'
28462 3' -52.9 NC_005946.1 + 58693 0.72 0.663853
Target:  5'- aCCUCAgCCUCUUUAgccuGACGUCAGucGCCg -3'
miRNA:   3'- cGGAGU-GGAGGAAU----UUGCAGUC--CGGg -5'
28462 3' -52.9 NC_005946.1 + 38181 0.72 0.673392
Target:  5'- gGCCaccacggUgACCUCgggCUgagGGACGUCGGGCCCc -3'
miRNA:   3'- -CGG-------AgUGGAG---GAa--UUUGCAGUCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 69893 0.72 0.68501
Target:  5'- gGCCUCauacggagugGCCUCCagGGccucggcguccAUGUCAGGCCUc -3'
miRNA:   3'- -CGGAG----------UGGAGGaaUU-----------UGCAGUCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 59901 0.72 0.7091
Target:  5'- cGCCUCcccgacaGCCUugucaaagaagggcaCCUU-GGCGUCGGGCCg -3'
miRNA:   3'- -CGGAG-------UGGA---------------GGAAuUUGCAGUCCGGg -5'
28462 3' -52.9 NC_005946.1 + 48885 0.72 0.716363
Target:  5'- uGCCUgACUUCCUcgGggUGUCuggaAGGUCCa -3'
miRNA:   3'- -CGGAgUGGAGGAa-UuuGCAG----UCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 79629 0.72 0.716363
Target:  5'- uGCCUgGCCUCag-AAAUGUCgauGGGCUCc -3'
miRNA:   3'- -CGGAgUGGAGgaaUUUGCAG---UCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 96299 0.71 0.754036
Target:  5'- cGCCUcCGCCUCCagGAucuuggagcacaccGCGUC-GGCCa -3'
miRNA:   3'- -CGGA-GUGGAGGaaUU--------------UGCAGuCCGGg -5'
28462 3' -52.9 NC_005946.1 + 87661 0.71 0.754036
Target:  5'- cCCUCACCUCCUUGucguugaacaucuuGGCGUU--GUCCa -3'
miRNA:   3'- cGGAGUGGAGGAAU--------------UUGCAGucCGGG- -5'
28462 3' -52.9 NC_005946.1 + 63525 0.7 0.811512
Target:  5'- uGUCUCccgggaccaacgggACC-CUUUGGGcCGUCGGGCCCc -3'
miRNA:   3'- -CGGAG--------------UGGaGGAAUUU-GCAGUCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 71235 0.69 0.823201
Target:  5'- uGCC-CACgUCCgcc-AgGUCGGGCCUg -3'
miRNA:   3'- -CGGaGUGgAGGaauuUgCAGUCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 57199 0.69 0.848101
Target:  5'- aUCUC-CCUCCUccaccugucccagUccACGUCAGGCuCCa -3'
miRNA:   3'- cGGAGuGGAGGA-------------AuuUGCAGUCCG-GG- -5'
28462 3' -52.9 NC_005946.1 + 8945 0.69 0.848929
Target:  5'- cCCUCACCUUCgcaauGACGUCucuGCCa -3'
miRNA:   3'- cGGAGUGGAGGaau--UUGCAGuc-CGGg -5'
28462 3' -52.9 NC_005946.1 + 95273 0.69 0.857089
Target:  5'- cCCUCACCUCauccccgggAGugGagGGGUCCa -3'
miRNA:   3'- cGGAGUGGAGgaa------UUugCagUCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 7269 0.69 0.857089
Target:  5'- aCCUcCACCUCCUgcGGCGgccgugguGGCCUc -3'
miRNA:   3'- cGGA-GUGGAGGAauUUGCagu-----CCGGG- -5'
28462 3' -52.9 NC_005946.1 + 40838 0.69 0.857089
Target:  5'- cGCCUC-CgUCCUcGGACucgagCAGGUCCg -3'
miRNA:   3'- -CGGAGuGgAGGAaUUUGca---GUCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 26966 0.68 0.872742
Target:  5'- uGUCUC-CCgucugCCU--GGCGUCGGGCUUg -3'
miRNA:   3'- -CGGAGuGGa----GGAauUUGCAGUCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 30138 0.68 0.879485
Target:  5'- cGUCUC-CCUUCUUGguGACGcugucuaUCAgGGCCCu -3'
miRNA:   3'- -CGGAGuGGAGGAAU--UUGC-------AGU-CCGGG- -5'
28462 3' -52.9 NC_005946.1 + 57496 0.68 0.880222
Target:  5'- uGCCUCcugGCCUCCgcauugccAGugGUgUAGGCCg -3'
miRNA:   3'- -CGGAG---UGGAGGaa------UUugCA-GUCCGGg -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.