miRNA display CGI


Results 1 - 20 of 56 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
31796 3' -60.3 NC_006938.1 + 7618 1.11 0.000268
Target:  5'- uCGCCGCGUACACUGGCAAGGCGGCCCa -3'
miRNA:   3'- -GCGGCGCAUGUGACCGUUCCGCCGGG- -5'
31796 3' -60.3 NC_006938.1 + 20829 0.82 0.045118
Target:  5'- cCGCCGCGcgggcaagACACaGcGCGAGGUGGCCCg -3'
miRNA:   3'- -GCGGCGCa-------UGUGaC-CGUUCCGCCGGG- -5'
31796 3' -60.3 NC_006938.1 + 28473 0.76 0.11808
Target:  5'- uGCCGgGUugACcGuGUAGGGCGGCCg -3'
miRNA:   3'- gCGGCgCAugUGaC-CGUUCCGCCGGg -5'
31796 3' -60.3 NC_006938.1 + 43316 0.75 0.124581
Target:  5'- uCGCCGCGaagGCACUGGCcGGGUaGGaCUCg -3'
miRNA:   3'- -GCGGCGCa--UGUGACCGuUCCG-CC-GGG- -5'
31796 3' -60.3 NC_006938.1 + 61040 0.75 0.131412
Target:  5'- aCGCCGCGUACAagaaccuguccuCUGGCAucaGCGGCa- -3'
miRNA:   3'- -GCGGCGCAUGU------------GACCGUuc-CGCCGgg -5'
31796 3' -60.3 NC_006938.1 + 18514 0.74 0.162319
Target:  5'- gGCCGgaCG-ACGgUGGCcucuGGGCGGCCCu -3'
miRNA:   3'- gCGGC--GCaUGUgACCGu---UCCGCCGGG- -5'
31796 3' -60.3 NC_006938.1 + 14388 0.74 0.162319
Target:  5'- aGCCGgGaUGCAgcUUGGCGAGGCGcucuGCCCc -3'
miRNA:   3'- gCGGCgC-AUGU--GACCGUUCCGC----CGGG- -5'
31796 3' -60.3 NC_006938.1 + 35654 0.73 0.17101
Target:  5'- gCGCgGuCGUcGCGCccuUGGCAAGGCGGCgCu -3'
miRNA:   3'- -GCGgC-GCA-UGUG---ACCGUUCCGCCGgG- -5'
31796 3' -60.3 NC_006938.1 + 62689 0.73 0.180114
Target:  5'- aCGUCGC-UGcCACUcGGCAGGGCGGCg- -3'
miRNA:   3'- -GCGGCGcAU-GUGA-CCGUUCCGCCGgg -5'
31796 3' -60.3 NC_006938.1 + 1471 0.72 0.199618
Target:  5'- aGCUGCcu-CcCgagGGCGAGGUGGCCCg -3'
miRNA:   3'- gCGGCGcauGuGa--CCGUUCCGCCGGG- -5'
31796 3' -60.3 NC_006938.1 + 53031 0.72 0.210043
Target:  5'- uCGCCGCGcAguCUGGCAccacgguggAGGCaGCCUg -3'
miRNA:   3'- -GCGGCGCaUguGACCGU---------UCCGcCGGG- -5'
31796 3' -60.3 NC_006938.1 + 39245 0.72 0.220934
Target:  5'- uCGCCGCcu-CGCcGGCAAacGGUGGUCCg -3'
miRNA:   3'- -GCGGCGcauGUGaCCGUU--CCGCCGGG- -5'
31796 3' -60.3 NC_006938.1 + 14544 0.71 0.256517
Target:  5'- uGCCGC---CAUUGGCucGGCGGUCUa -3'
miRNA:   3'- gCGGCGcauGUGACCGuuCCGCCGGG- -5'
31796 3' -60.3 NC_006938.1 + 9733 0.71 0.256517
Target:  5'- aCGaCCGCGUACACauccgUGGCAaacAGGUcccagucgaaGGUCCa -3'
miRNA:   3'- -GC-GGCGCAUGUG-----ACCGU---UCCG----------CCGGG- -5'
31796 3' -60.3 NC_006938.1 + 15564 0.7 0.269381
Target:  5'- cCGcCCGCGUcagcccGCucCUGGuCGAGGCcagcGGCCCa -3'
miRNA:   3'- -GC-GGCGCA------UGu-GACC-GUUCCG----CCGGG- -5'
31796 3' -60.3 NC_006938.1 + 56101 0.7 0.289644
Target:  5'- uCGCCGCGccuauCUGGacucugauGGCGGCCUg -3'
miRNA:   3'- -GCGGCGCaugu-GACCguu-----CCGCCGGG- -5'
31796 3' -60.3 NC_006938.1 + 24657 0.69 0.311084
Target:  5'- aGCCGCGaGCGCgcauggccucUGGCAGcgcgcGGCGGCg- -3'
miRNA:   3'- gCGGCGCaUGUG----------ACCGUU-----CCGCCGgg -5'
31796 3' -60.3 NC_006938.1 + 23866 0.69 0.326035
Target:  5'- gGCCG-GUGCGCUGaGCGugacacCGGCCCu -3'
miRNA:   3'- gCGGCgCAUGUGAC-CGUucc---GCCGGG- -5'
31796 3' -60.3 NC_006938.1 + 46986 0.69 0.332935
Target:  5'- gGCgCGCGUcaccgugcgccACACgggUGGCAacgacgcugcccuGGGCGGCCg -3'
miRNA:   3'- gCG-GCGCA-----------UGUG---ACCGU-------------UCCGCCGGg -5'
31796 3' -60.3 NC_006938.1 + 50891 0.69 0.333709
Target:  5'- gGCCgagGCGUGCucaACgccuuccGCGAGGCGGCCg -3'
miRNA:   3'- gCGG---CGCAUG---UGac-----CGUUCCGCCGGg -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.