miRNA display CGI


Results 21 - 38 of 38 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
15681 3' -59.5 NC_004065.1 + 134151 0.67 0.809077
Target:  5'- uCGCuccGCGAG-GGUGGcccgucguuccgcccGGCGCGCCg -3'
miRNA:   3'- cGCGca-CGCUCaCCACCu--------------CCGUGCGG- -5'
15681 3' -59.5 NC_004065.1 + 78899 0.67 0.840309
Target:  5'- uGCGCuG-GCGgccgaucucuugGGUGGcGGAGGCGgGUCg -3'
miRNA:   3'- -CGCG-CaCGC------------UCACCaCCUCCGUgCGG- -5'
15681 3' -59.5 NC_004065.1 + 201808 0.66 0.855355
Target:  5'- -aGCG-GCGAGUuGUGGcgucuGGCcgacaGCGCCg -3'
miRNA:   3'- cgCGCaCGCUCAcCACCu----CCG-----UGCGG- -5'
15681 3' -59.5 NC_004065.1 + 199285 0.66 0.86261
Target:  5'- uGUGUGUGCGccggGGUGGcgagaugGaGAGGCcggugacggcgaACGCCa -3'
miRNA:   3'- -CGCGCACGC----UCACCa------C-CUCCG------------UGCGG- -5'
15681 3' -59.5 NC_004065.1 + 71022 0.66 0.86261
Target:  5'- gGC-CGUGauguaGGGcagGGUGGuGGC-CGCCg -3'
miRNA:   3'- -CGcGCACg----CUCa--CCACCuCCGuGCGG- -5'
15681 3' -59.5 NC_004065.1 + 126755 0.66 0.86261
Target:  5'- cGCGCGgcgcaugGCGAcgcgGGUGca-GCGCGCCa -3'
miRNA:   3'- -CGCGCa------CGCUca--CCACcucCGUGCGG- -5'
15681 3' -59.5 NC_004065.1 + 1844 0.66 0.86968
Target:  5'- uGUGCGagaauacgGCGAGacGGaGGucgcucgcAGGCACGCCg -3'
miRNA:   3'- -CGCGCa-------CGCUCa-CCaCC--------UCCGUGCGG- -5'
15681 3' -59.5 NC_004065.1 + 58328 0.68 0.782681
Target:  5'- cGCGCaagGCGGGcGGUGGcGGCgGCGgCg -3'
miRNA:   3'- -CGCGca-CGCUCaCCACCuCCG-UGCgG- -5'
15681 3' -59.5 NC_004065.1 + 75957 0.68 0.773909
Target:  5'- aCGCGaagauacGCaGGaGGUGGGGGCGCgGCCa -3'
miRNA:   3'- cGCGCa------CGcUCaCCACCUCCGUG-CGG- -5'
15681 3' -59.5 NC_004065.1 + 27784 1.13 0.001235
Target:  5'- gGCGCGUGCGAGUGGUGGAGGCACGCCg -3'
miRNA:   3'- -CGCGCACGCUCACCACCUCCGUGCGG- -5'
15681 3' -59.5 NC_004065.1 + 26286 0.76 0.322571
Target:  5'- cCGCGUGCGAGccgcUGGUGGAcG-ACGCCg -3'
miRNA:   3'- cGCGCACGCUC----ACCACCUcCgUGCGG- -5'
15681 3' -59.5 NC_004065.1 + 44804 0.73 0.509623
Target:  5'- gGUG-GUGCGGGUcG-GGAGGCAgCGCCg -3'
miRNA:   3'- -CGCgCACGCUCAcCaCCUCCGU-GCGG- -5'
15681 3' -59.5 NC_004065.1 + 139620 0.72 0.565789
Target:  5'- cCGCGUcGUcGGUGGUGGAGa-GCGCCg -3'
miRNA:   3'- cGCGCA-CGcUCACCACCUCcgUGCGG- -5'
15681 3' -59.5 NC_004065.1 + 64127 0.71 0.623422
Target:  5'- gGUGaCGUGCGGGUGGUGGuccuucGCgaACGCg -3'
miRNA:   3'- -CGC-GCACGCUCACCACCuc----CG--UGCGg -5'
15681 3' -59.5 NC_004065.1 + 16530 0.69 0.709773
Target:  5'- gGUcUGUGUGAG-GGUGGc-GCACGCCu -3'
miRNA:   3'- -CGcGCACGCUCaCCACCucCGUGCGG- -5'
15681 3' -59.5 NC_004065.1 + 197423 0.69 0.709773
Target:  5'- cCGCG-GgGAGcuggcgucccUGGUcGaGAGGCGCGCCg -3'
miRNA:   3'- cGCGCaCgCUC----------ACCA-C-CUCCGUGCGG- -5'
15681 3' -59.5 NC_004065.1 + 202462 0.69 0.728507
Target:  5'- cUGUGU-CGGGUaccccccggGGUGGuGGCugGCCg -3'
miRNA:   3'- cGCGCAcGCUCA---------CCACCuCCGugCGG- -5'
15681 3' -59.5 NC_004065.1 + 147158 0.66 0.883245
Target:  5'- uGCGCGgggagcuguggGCGAGgcguUGGAGGaaaGCGUCg -3'
miRNA:   3'- -CGCGCa----------CGCUCacc-ACCUCCg--UGCGG- -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.