miRNA display CGI


Results 1 - 20 of 35 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
26580 5' -54.1 NC_005357.1 + 29507 1.1 0.000918
Target:  5'- uCCACGUCAAUGGCGACGACAGGCUGUg -3'
miRNA:   3'- -GGUGCAGUUACCGCUGCUGUCCGACA- -5'
26580 5' -54.1 NC_005357.1 + 5995 0.67 0.646331
Target:  5'- uCUGCGUCGcucaaaAUGGCGACGACuucGCcgGUg -3'
miRNA:   3'- -GGUGCAGU------UACCGCUGCUGuc-CGa-CA- -5'
26580 5' -54.1 NC_005357.1 + 18559 0.67 0.684391
Target:  5'- aUCACGUCGGUggaggccgcgcucgcGGUGACGGCcuGGCcGUc -3'
miRNA:   3'- -GGUGCAGUUA---------------CCGCUGCUGu-CCGaCA- -5'
26580 5' -54.1 NC_005357.1 + 15030 0.66 0.691058
Target:  5'- uCCGCGUUGGuguUGGCGAUGcccgcguugauGCGGGCa-- -3'
miRNA:   3'- -GGUGCAGUU---ACCGCUGC-----------UGUCCGaca -5'
26580 5' -54.1 NC_005357.1 + 38032 0.66 0.702121
Target:  5'- gCACGcUCAAggcccgGcGCGACGGCGccuGGCUGc -3'
miRNA:   3'- gGUGC-AGUUa-----C-CGCUGCUGU---CCGACa -5'
26580 5' -54.1 NC_005357.1 + 35975 0.66 0.713112
Target:  5'- cCUGCG-CGAcGGCGACGccuucGCGGGCgGUg -3'
miRNA:   3'- -GGUGCaGUUaCCGCUGC-----UGUCCGaCA- -5'
26580 5' -54.1 NC_005357.1 + 1305 0.66 0.72402
Target:  5'- gCCGCGcCcagGGCGACGGCcaccAGGCcGa -3'
miRNA:   3'- -GGUGCaGuuaCCGCUGCUG----UCCGaCa -5'
26580 5' -54.1 NC_005357.1 + 41427 0.66 0.72402
Target:  5'- uCC-CGgcCAGUGGCG-CGggcaGCGGGCUGa -3'
miRNA:   3'- -GGuGCa-GUUACCGCuGC----UGUCCGACa -5'
26580 5' -54.1 NC_005357.1 + 14303 0.66 0.734833
Target:  5'- cCCACGUCGuugcugaacUGGCGcGCGcCuuGGCUGa -3'
miRNA:   3'- -GGUGCAGUu--------ACCGC-UGCuGu-CCGACa -5'
26580 5' -54.1 NC_005357.1 + 11383 0.67 0.635088
Target:  5'- gCACcUCGGUGGCGACcuGAUGGGCc-- -3'
miRNA:   3'- gGUGcAGUUACCGCUG--CUGUCCGaca -5'
26580 5' -54.1 NC_005357.1 + 7837 0.68 0.623842
Target:  5'- cCCAUGUucagcgCGAUGGUGA-GGCGGGCUu- -3'
miRNA:   3'- -GGUGCA------GUUACCGCUgCUGUCCGAca -5'
26580 5' -54.1 NC_005357.1 + 17657 0.82 0.083651
Target:  5'- gCCACGaUCuuGAUGGCGuCGGCGGGCUGg -3'
miRNA:   3'- -GGUGC-AG--UUACCGCuGCUGUCCGACa -5'
26580 5' -54.1 NC_005357.1 + 32710 0.75 0.263592
Target:  5'- gCCGCGUgCAAUcaGGCGAUGGaGGGCUGa -3'
miRNA:   3'- -GGUGCA-GUUA--CCGCUGCUgUCCGACa -5'
26580 5' -54.1 NC_005357.1 + 15560 0.73 0.339917
Target:  5'- uCCAgGUCAAUGGCGccgucagugACGACGcGCUGc -3'
miRNA:   3'- -GGUgCAGUUACCGC---------UGCUGUcCGACa -5'
26580 5' -54.1 NC_005357.1 + 16121 0.71 0.44091
Target:  5'- gCACGUCGGUGGCcccGACG-UAGGaCUGc -3'
miRNA:   3'- gGUGCAGUUACCG---CUGCuGUCC-GACa -5'
26580 5' -54.1 NC_005357.1 + 24627 0.7 0.461036
Target:  5'- gCACGUCGAaccacaUGGCGugcCGGCGGGCc-- -3'
miRNA:   3'- gGUGCAGUU------ACCGCu--GCUGUCCGaca -5'
26580 5' -54.1 NC_005357.1 + 32612 0.7 0.502674
Target:  5'- cCCGCGUCAAgggccGCGACGccGCGGucGCUGUc -3'
miRNA:   3'- -GGUGCAGUUac---CGCUGC--UGUC--CGACA- -5'
26580 5' -54.1 NC_005357.1 + 14533 0.68 0.582374
Target:  5'- gCCACGUCGccGGCGccggacaacagcgACGAgaaacccgccccuacCGGGCUGa -3'
miRNA:   3'- -GGUGCAGUuaCCGC-------------UGCU---------------GUCCGACa -5'
26580 5' -54.1 NC_005357.1 + 9327 0.68 0.623842
Target:  5'- gCACGUC---GGCG-CGGCGGGCg-- -3'
miRNA:   3'- gGUGCAGuuaCCGCuGCUGUCCGaca -5'
26580 5' -54.1 NC_005357.1 + 38539 0.66 0.734833
Target:  5'- aCCAaguUCGGcGGCGACGGCAGcGCg-- -3'
miRNA:   3'- -GGUgc-AGUUaCCGCUGCUGUC-CGaca -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.