miRNA display CGI


Results 1 - 20 of 25 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
13194 3' -51.1 NC_003401.1 + 109530 0.66 0.987836
Target:  5'- ---aUUgGGGGAUGGCCucg--GGCCg -3'
miRNA:   3'- ucuaAAgCCUCUAUCGGuucgaCCGG- -5'
13194 3' -51.1 NC_003401.1 + 28069 0.66 0.986015
Target:  5'- cGGUgcCGGAGcGUAGCCGuacgucggagaauAGUacgUGGCCg -3'
miRNA:   3'- uCUAaaGCCUC-UAUCGGU-------------UCG---ACCGG- -5'
13194 3' -51.1 NC_003401.1 + 82713 0.66 0.984375
Target:  5'- uGGUUcCGGAGAUuccaGGCCAcuuAGCagaguuucaGGCCg -3'
miRNA:   3'- uCUAAaGCCUCUA----UCGGU---UCGa--------CCGG- -5'
13194 3' -51.1 NC_003401.1 + 35408 0.66 0.980214
Target:  5'- gAGGUUUCGGAGGUguuccuuaacAGCgCGAuGUUugucucGGCCg -3'
miRNA:   3'- -UCUAAAGCCUCUA----------UCG-GUU-CGA------CCGG- -5'
13194 3' -51.1 NC_003401.1 + 44539 0.67 0.969499
Target:  5'- -aAUUUUGGGGAUcgacaugucaaAGCaCAGGgaGGCCc -3'
miRNA:   3'- ucUAAAGCCUCUA-----------UCG-GUUCgaCCGG- -5'
13194 3' -51.1 NC_003401.1 + 125096 0.67 0.969499
Target:  5'- uGAUggCGGccacGGCCGAGUUGGCa -3'
miRNA:   3'- uCUAaaGCCucuaUCGGUUCGACCGg -5'
13194 3' -51.1 NC_003401.1 + 42761 0.67 0.969499
Target:  5'- gGGGUgccgcacUCGGAcaacauaccgGGUcucAGCCAcggacAGCUGGCCa -3'
miRNA:   3'- -UCUAa------AGCCU----------CUA---UCGGU-----UCGACCGG- -5'
13194 3' -51.1 NC_003401.1 + 82951 0.67 0.966273
Target:  5'- -----aCGGGGGUuGCgCGAGgaGGCCg -3'
miRNA:   3'- ucuaaaGCCUCUAuCG-GUUCgaCCGG- -5'
13194 3' -51.1 NC_003401.1 + 16178 0.67 0.966273
Target:  5'- cGGGUUcacCGG-GGUGGCC-AGC-GGCCu -3'
miRNA:   3'- -UCUAAa--GCCuCUAUCGGuUCGaCCGG- -5'
13194 3' -51.1 NC_003401.1 + 132753 0.67 0.966273
Target:  5'- gGGAggccggCGGAGGaccgccauGCCGGGCgcGGCCg -3'
miRNA:   3'- -UCUaaa---GCCUCUau------CGGUUCGa-CCGG- -5'
13194 3' -51.1 NC_003401.1 + 16345 0.68 0.955173
Target:  5'- ----aUgGGAGGaGGCC--GCUGGCCa -3'
miRNA:   3'- ucuaaAgCCUCUaUCGGuuCGACCGG- -5'
13194 3' -51.1 NC_003401.1 + 68598 0.68 0.955173
Target:  5'- cGAUgagccCGGAGAUGGgacCCAGGgaGGCa -3'
miRNA:   3'- uCUAaa---GCCUCUAUC---GGUUCgaCCGg -5'
13194 3' -51.1 NC_003401.1 + 132481 0.68 0.946531
Target:  5'- cGGGg--CGGAGGgccgggAGCCGgGGgaGGCCg -3'
miRNA:   3'- -UCUaaaGCCUCUa-----UCGGU-UCgaCCGG- -5'
13194 3' -51.1 NC_003401.1 + 21469 0.69 0.931629
Target:  5'- aGGGcUUCGGGGAccGCCGcgagGGCgaucuggGGCCg -3'
miRNA:   3'- -UCUaAAGCCUCUauCGGU----UCGa------CCGG- -5'
13194 3' -51.1 NC_003401.1 + 69761 0.69 0.926137
Target:  5'- cGGUUUCGGcGAagGGCggaGAGCcGGCCg -3'
miRNA:   3'- uCUAAAGCCuCUa-UCGg--UUCGaCCGG- -5'
13194 3' -51.1 NC_003401.1 + 77466 0.69 0.918602
Target:  5'- gGGGUUacgCGGuGuuaaaauuaacaaaGUAGCCGgagAGCUGGCCc -3'
miRNA:   3'- -UCUAAa--GCCuC--------------UAUCGGU---UCGACCGG- -5'
13194 3' -51.1 NC_003401.1 + 23511 0.7 0.908078
Target:  5'- gGGGUUUCGGuGAcgcgcGCCGcagAGgaGGCCg -3'
miRNA:   3'- -UCUAAAGCCuCUau---CGGU---UCgaCCGG- -5'
13194 3' -51.1 NC_003401.1 + 132668 0.7 0.894738
Target:  5'- gGGGgcgUCGGGGcgcggcgccGCCGGGCUcGGCCg -3'
miRNA:   3'- -UCUaa-AGCCUCuau------CGGUUCGA-CCGG- -5'
13194 3' -51.1 NC_003401.1 + 104080 0.71 0.872841
Target:  5'- uGGAUUggCGGAGccguucGGCCGccgagauGCUGGCCu -3'
miRNA:   3'- -UCUAAa-GCCUCua----UCGGUu------CGACCGG- -5'
13194 3' -51.1 NC_003401.1 + 74120 0.71 0.852129
Target:  5'- uGGGUUUUGGGGAgcgUGGCCAcGUcgguaaaccugauuuUGGCCc -3'
miRNA:   3'- -UCUAAAGCCUCU---AUCGGUuCG---------------ACCGG- -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.