miRNA display CGI


Results 1 - 20 of 27 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
31899 3' -63.4 NC_006938.1 + 44 0.66 0.395837
Target:  5'- aCGCGGAGaGuGCCACuGUCaacgugaaCGGCGACg -3'
miRNA:   3'- gGUGCCUCcC-CGGUG-CGGa-------GCCGCUG- -5'
31899 3' -63.4 NC_006938.1 + 1886 0.71 0.17751
Target:  5'- gCC-CGGAcaGGGGUCGCGCggCGGuCGGCa -3'
miRNA:   3'- -GGuGCCU--CCCCGGUGCGgaGCC-GCUG- -5'
31899 3' -63.4 NC_006938.1 + 9257 0.7 0.216677
Target:  5'- gCCACGGcGGuGGCCAgaGCU--GGCGACg -3'
miRNA:   3'- -GGUGCCuCC-CCGGUg-CGGagCCGCUG- -5'
31899 3' -63.4 NC_006938.1 + 9592 0.69 0.247127
Target:  5'- ---gGGAGGGGCUgcuCGCCgcagggauugguggCGGCGAUg -3'
miRNA:   3'- ggugCCUCCCCGGu--GCGGa-------------GCCGCUG- -5'
31899 3' -63.4 NC_006938.1 + 15143 0.68 0.269339
Target:  5'- -aACGGAGGGGCgGuCGUCgcuccggagcCGGUGACc -3'
miRNA:   3'- ggUGCCUCCCCGgU-GCGGa---------GCCGCUG- -5'
31899 3' -63.4 NC_006938.1 + 17476 0.67 0.3244
Target:  5'- uCCA-GGAGGGGaggguggaCAUGUCU-GGCGGCu -3'
miRNA:   3'- -GGUgCCUCCCCg-------GUGCGGAgCCGCUG- -5'
31899 3' -63.4 NC_006938.1 + 19263 0.71 0.172645
Target:  5'- uCCACuuuGGAGGGGacauugaucuCCACGCagguccgcaugauCUCGGCGAUc -3'
miRNA:   3'- -GGUG---CCUCCCC----------GGUGCG-------------GAGCCGCUG- -5'
31899 3' -63.4 NC_006938.1 + 20849 0.66 0.370926
Target:  5'- -aGCGcGAGGuGGCC-CGagaCCUCGGCGuCu -3'
miRNA:   3'- ggUGC-CUCC-CCGGuGC---GGAGCCGCuG- -5'
31899 3' -63.4 NC_006938.1 + 22370 0.66 0.37911
Target:  5'- aCCAuCGGAuGGGCCGCGCgaCuGGUG-Ca -3'
miRNA:   3'- -GGU-GCCUcCCCGGUGCGgaG-CCGCuG- -5'
31899 3' -63.4 NC_006938.1 + 24490 0.72 0.156342
Target:  5'- gCACGGAGGaGGaCgACGCCUUcaaGGCGGa -3'
miRNA:   3'- gGUGCCUCC-CC-GgUGCGGAG---CCGCUg -5'
31899 3' -63.4 NC_006938.1 + 27519 0.69 0.259274
Target:  5'- gCCA-GGAcugcGGGGCCACGCacccgcccguucgCGGUGGCu -3'
miRNA:   3'- -GGUgCCU----CCCCGGUGCGga-----------GCCGCUG- -5'
31899 3' -63.4 NC_006938.1 + 32518 0.67 0.307754
Target:  5'- cCCACucuGGAGGGGUaCACcuccaugauguccuGCCUgCGGaCGACg -3'
miRNA:   3'- -GGUG---CCUCCCCG-GUG--------------CGGA-GCC-GCUG- -5'
31899 3' -63.4 NC_006938.1 + 33987 0.7 0.222063
Target:  5'- cUCGCGGAGGGGCU---CCaUGGUGGCa -3'
miRNA:   3'- -GGUGCCUCCCCGGugcGGaGCCGCUG- -5'
31899 3' -63.4 NC_006938.1 + 37133 0.69 0.242988
Target:  5'- cCCACGGugacAGGGGCCgggucaugucccgcGCGCCggucCGGCu-- -3'
miRNA:   3'- -GGUGCC----UCCCCGG--------------UGCGGa---GCCGcug -5'
31899 3' -63.4 NC_006938.1 + 37894 0.66 0.354923
Target:  5'- cCCACacuGGuGGcCCGCGUCUCagGGCGGCg -3'
miRNA:   3'- -GGUGccuCC-CC-GGUGCGGAG--CCGCUG- -5'
31899 3' -63.4 NC_006938.1 + 39926 0.69 0.227562
Target:  5'- cUCGUGGGgcGGGGCCACGCUcagUGGCGGa -3'
miRNA:   3'- -GGUGCCU--CCCCGGUGCGGa--GCCGCUg -5'
31899 3' -63.4 NC_006938.1 + 40837 0.67 0.309888
Target:  5'- uCC-CGGuuGGGCUGCGCCUUGcGCuGCu -3'
miRNA:   3'- -GGuGCCucCCCGGUGCGGAGC-CGcUG- -5'
31899 3' -63.4 NC_006938.1 + 41976 0.69 0.233177
Target:  5'- gCACGGAGcgcaucauGGGCgACGUCggcaCGGCGAa -3'
miRNA:   3'- gGUGCCUC--------CCCGgUGCGGa---GCCGCUg -5'
31899 3' -63.4 NC_006938.1 + 44010 0.66 0.361265
Target:  5'- uCCGCGauguucaucGGUCugGCCUCGGCGGg -3'
miRNA:   3'- -GGUGCcucc-----CCGGugCGGAGCCGCUg -5'
31899 3' -63.4 NC_006938.1 + 45892 0.66 0.354923
Target:  5'- gCGCGGAGaacguGGCaCGgGCCUCGGCc-- -3'
miRNA:   3'- gGUGCCUCc----CCG-GUgCGGAGCCGcug -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.