miRNA display CGI


Results 1 - 20 of 129 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
18438 3' -54 NC_004681.1 + 39472 0.7 0.683251
Target:  5'- uCCgCGGuGCGcuGGCUCAAGGCCggUGGCa -3'
miRNA:   3'- -GG-GCC-UGC--UUGAGUUCCGGuaGCUGg -5'
18438 3' -54 NC_004681.1 + 1989 0.72 0.593949
Target:  5'- gUCCGGGCGAuugGCUCcagcacccauccGGCCG-CGGCCa -3'
miRNA:   3'- -GGGCCUGCU---UGAGuu----------CCGGUaGCUGG- -5'
18438 3' -54 NC_004681.1 + 13559 0.71 0.613077
Target:  5'- -aUGGGCGAAgagacguacgcgcgcUUCAAGGCCGcgggCGGCCa -3'
miRNA:   3'- ggGCCUGCUU---------------GAGUUCCGGUa---GCUGG- -5'
18438 3' -54 NC_004681.1 + 49404 0.71 0.617337
Target:  5'- aCCgaGGACGAAgUCAAGGCCGacuggaaUCGggacugcACCg -3'
miRNA:   3'- -GGg-CCUGCUUgAGUUCCGGU-------AGC-------UGG- -5'
18438 3' -54 NC_004681.1 + 8512 0.71 0.629058
Target:  5'- uCgCGGACGGugagaccGCcccCGcGGCCAUCGGCCa -3'
miRNA:   3'- -GgGCCUGCU-------UGa--GUuCCGGUAGCUGG- -5'
18438 3' -54 NC_004681.1 + 37567 0.71 0.651435
Target:  5'- gUCCGGGguCGAGCUgu-GGUgAUCGGCCa -3'
miRNA:   3'- -GGGCCU--GCUUGAguuCCGgUAGCUGG- -5'
18438 3' -54 NC_004681.1 + 53159 0.7 0.662069
Target:  5'- aCCCGGccACGGACUUccucauGGCCG-CGACa -3'
miRNA:   3'- -GGGCC--UGCUUGAGuu----CCGGUaGCUGg -5'
18438 3' -54 NC_004681.1 + 58824 0.7 0.662069
Target:  5'- aCCCGGACa-----GAGGCCAacaaccucuUCGACCc -3'
miRNA:   3'- -GGGCCUGcuugagUUCCGGU---------AGCUGG- -5'
18438 3' -54 NC_004681.1 + 30719 0.7 0.682195
Target:  5'- uCCCacaugugGGGCGAGCUCGAcGGCaugcuCAUCGAguCCg -3'
miRNA:   3'- -GGG-------CCUGCUUGAGUU-CCG-----GUAGCU--GG- -5'
18438 3' -54 NC_004681.1 + 579 0.72 0.577026
Target:  5'- cCCCaGGCGAGuuccUUCAGGgcGCCAUCGACg -3'
miRNA:   3'- -GGGcCUGCUU----GAGUUC--CGGUAGCUGg -5'
18438 3' -54 NC_004681.1 + 20772 0.72 0.566503
Target:  5'- uCCCGGucacuauCGAAaUCGGGGCCAUgCGAUg -3'
miRNA:   3'- -GGGCCu------GCUUgAGUUCCGGUA-GCUGg -5'
18438 3' -54 NC_004681.1 + 18332 0.73 0.529082
Target:  5'- gUCCGGuggcggugGCGGGCUCGGGuucacccccgguggcGCCAUCGACa -3'
miRNA:   3'- -GGGCC--------UGCUUGAGUUC---------------CGGUAGCUGg -5'
18438 3' -54 NC_004681.1 + 52850 0.83 0.144176
Target:  5'- uUCCGGGCGGAaggcuGGCCAUCGGCCu -3'
miRNA:   3'- -GGGCCUGCUUgaguuCCGGUAGCUGG- -5'
18438 3' -54 NC_004681.1 + 25841 0.76 0.348999
Target:  5'- aUCCaGGACGGGCUCAucucgcuGGaagacaCCAUCGACCa -3'
miRNA:   3'- -GGG-CCUGCUUGAGUu------CC------GGUAGCUGG- -5'
18438 3' -54 NC_004681.1 + 1081 0.75 0.406202
Target:  5'- cCCUGGcagcGCGAGCgccUCAAGGCCAUCuacgagcgccucaaGGCCa -3'
miRNA:   3'- -GGGCC----UGCUUG---AGUUCCGGUAG--------------CUGG- -5'
18438 3' -54 NC_004681.1 + 52250 0.74 0.445882
Target:  5'- gCCGGugGcGACUCucuGGGCCG-CGACg -3'
miRNA:   3'- gGGCCugC-UUGAGu--UCCGGUaGCUGg -5'
18438 3' -54 NC_004681.1 + 9960 0.74 0.474809
Target:  5'- uCCUGGGCGAAgUCucAGGUCAggguuacugCGGCCg -3'
miRNA:   3'- -GGGCCUGCUUgAGu-UCCGGUa--------GCUGG- -5'
18438 3' -54 NC_004681.1 + 17083 0.73 0.494606
Target:  5'- gCCGGugGAuucuggGCUCAgauGGGCCAgaaGAUCg -3'
miRNA:   3'- gGGCCugCU------UGAGU---UCCGGUag-CUGG- -5'
18438 3' -54 NC_004681.1 + 32212 0.73 0.513754
Target:  5'- aCCUGGugGAGC---AGGCCAUCGcagcggcagcgcgGCCu -3'
miRNA:   3'- -GGGCCugCUUGaguUCCGGUAGC-------------UGG- -5'
18438 3' -54 NC_004681.1 + 1299 0.73 0.51477
Target:  5'- uCUgGGACGAGCU---GGCCGaCGACCu -3'
miRNA:   3'- -GGgCCUGCUUGAguuCCGGUaGCUGG- -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.