miRNA display CGI


Results 1 - 20 of 50 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
23149 3' -60.5 NC_005178.1 + 26294 1.11 0.000126
Target:  5'- cACCGCCGGGCAACUGUCCGCCAUGGCg -3'
miRNA:   3'- -UGGCGGCCCGUUGACAGGCGGUACCG- -5'
23149 3' -60.5 NC_005178.1 + 11234 0.76 0.065442
Target:  5'- uUCGCCcuGGCGAgUGacgCCGCCAUGGCg -3'
miRNA:   3'- uGGCGGc-CCGUUgACa--GGCGGUACCG- -5'
23149 3' -60.5 NC_005178.1 + 32420 0.75 0.084684
Target:  5'- gGCaGCCGGuGCGGCUGUaucaguucaGCCGUGGCg -3'
miRNA:   3'- -UGgCGGCC-CGUUGACAgg-------CGGUACCG- -5'
23149 3' -60.5 NC_005178.1 + 16331 0.74 0.094873
Target:  5'- gGCCgGCCGGGgAGCggguuucgGUgCCGuCCGUGGCg -3'
miRNA:   3'- -UGG-CGGCCCgUUGa-------CA-GGC-GGUACCG- -5'
23149 3' -60.5 NC_005178.1 + 2731 0.74 0.099546
Target:  5'- cGCCGCCcuGGGCGagguggccaccaagGCgGUCCGCCAggagacgcagcUGGCc -3'
miRNA:   3'- -UGGCGG--CCCGU--------------UGaCAGGCGGU-----------ACCG- -5'
23149 3' -60.5 NC_005178.1 + 16548 0.74 0.100393
Target:  5'- gACCucaaggaCCGGGCcgacCUGgCCGCCAUGGCa -3'
miRNA:   3'- -UGGc------GGCCCGuu--GACaGGCGGUACCG- -5'
23149 3' -60.5 NC_005178.1 + 22430 0.73 0.106215
Target:  5'- gAUCGCuCGGGCAgguACUGgacagcCCGCCuUGGCc -3'
miRNA:   3'- -UGGCG-GCCCGU---UGACa-----GGCGGuACCG- -5'
23149 3' -60.5 NC_005178.1 + 11460 0.73 0.109244
Target:  5'- -aCGCUGcGGCAGC-GUCCGCCccucgGGCg -3'
miRNA:   3'- ugGCGGC-CCGUUGaCAGGCGGua---CCG- -5'
23149 3' -60.5 NC_005178.1 + 28734 0.73 0.112353
Target:  5'- cACgCGCCGGGCGACUuUCuUGCCGaccUGGUg -3'
miRNA:   3'- -UG-GCGGCCCGUUGAcAG-GCGGU---ACCG- -5'
23149 3' -60.5 NC_005178.1 + 28232 0.73 0.11849
Target:  5'- cGCCGCCGcuauccaGGCcGCUG-CCGCCucgcUGGCc -3'
miRNA:   3'- -UGGCGGC-------CCGuUGACaGGCGGu---ACCG- -5'
23149 3' -60.5 NC_005178.1 + 2446 0.71 0.144282
Target:  5'- gGCCGCCaGcGGCAGCUcggcggcgaguaGUCCGgUcgGGCa -3'
miRNA:   3'- -UGGCGG-C-CCGUUGA------------CAGGCgGuaCCG- -5'
23149 3' -60.5 NC_005178.1 + 11670 0.71 0.165425
Target:  5'- -gCGCC-GGCAACUG-CCGC-AUGGCc -3'
miRNA:   3'- ugGCGGcCCGUUGACaGGCGgUACCG- -5'
23149 3' -60.5 NC_005178.1 + 27879 0.7 0.169974
Target:  5'- gGCCGCCcaGGGCAACUGg--GUCAacggGGCg -3'
miRNA:   3'- -UGGCGG--CCCGUUGACaggCGGUa---CCG- -5'
23149 3' -60.5 NC_005178.1 + 22264 0.7 0.169974
Target:  5'- gACCGCCaGGCug--GcCCGCCA-GGCg -3'
miRNA:   3'- -UGGCGGcCCGuugaCaGGCGGUaCCG- -5'
23149 3' -60.5 NC_005178.1 + 3644 0.7 0.174635
Target:  5'- gGCCGCCGaGCAuCg--CCGCCA-GGCg -3'
miRNA:   3'- -UGGCGGCcCGUuGacaGGCGGUaCCG- -5'
23149 3' -60.5 NC_005178.1 + 4930 0.7 0.17941
Target:  5'- gAUCGCCGaGG-AACUGgCCGCCAgcGGCc -3'
miRNA:   3'- -UGGCGGC-CCgUUGACaGGCGGUa-CCG- -5'
23149 3' -60.5 NC_005178.1 + 20219 0.7 0.189307
Target:  5'- uGCCgaGCUGGGCGACcucgGccCCGCCGUccGGCg -3'
miRNA:   3'- -UGG--CGGCCCGUUGa---Ca-GGCGGUA--CCG- -5'
23149 3' -60.5 NC_005178.1 + 14100 0.7 0.194434
Target:  5'- -gCGCCGGGCGccCUGgccgUCGCCcugGGCg -3'
miRNA:   3'- ugGCGGCCCGUu-GACa---GGCGGua-CCG- -5'
23149 3' -60.5 NC_005178.1 + 1229 0.7 0.196518
Target:  5'- cGCUGUCGGGCAucagauugagaaACggcaugccguugagGUCUGCCAcGGCa -3'
miRNA:   3'- -UGGCGGCCCGU------------UGa-------------CAGGCGGUaCCG- -5'
23149 3' -60.5 NC_005178.1 + 25819 0.69 0.199682
Target:  5'- gACCGCCugcucGGCAcguCUGa-CGCCAUGGCc -3'
miRNA:   3'- -UGGCGGc----CCGUu--GACagGCGGUACCG- -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.