miRNA display CGI


Results 1 - 20 of 319 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
23780 3' -69.5 NC_005261.1 + 96 0.72 0.128504
Target:  5'- gGCGcGCCcccgggCCCCGCCgCCCGCGccGGCGcCg -3'
miRNA:   3'- -UGC-CGGa-----GGGGCGG-GGGCGC--CCGCuG- -5'
23780 3' -69.5 NC_005261.1 + 343 0.66 0.318381
Target:  5'- gGCGGCCcgcagCCCgGCgcggCCCgGCGgcgguGGCGGCg -3'
miRNA:   3'- -UGCCGGa----GGGgCG----GGGgCGC-----CCGCUG- -5'
23780 3' -69.5 NC_005261.1 + 550 0.71 0.148197
Target:  5'- gACGGCggCUCgGCCgCCGCGcGGUGACa -3'
miRNA:   3'- -UGCCGgaGGGgCGGgGGCGC-CCGCUG- -5'
23780 3' -69.5 NC_005261.1 + 943 0.66 0.338237
Target:  5'- -gGGCCUCCCUcuccucccuccgaGCCCguagagCgGCGGGCcGCg -3'
miRNA:   3'- ugCCGGAGGGG-------------CGGG------GgCGCCCGcUG- -5'
23780 3' -69.5 NC_005261.1 + 1073 0.68 0.234908
Target:  5'- -gGGCUggCCCCGCUCCa--GGGCGAg -3'
miRNA:   3'- ugCCGGa-GGGGCGGGGgcgCCCGCUg -5'
23780 3' -69.5 NC_005261.1 + 1239 0.68 0.239672
Target:  5'- cCGGCC-CCgggaagcccgaguCCGUgCCCGgGGGUGACu -3'
miRNA:   3'- uGCCGGaGG-------------GGCGgGGGCgCCCGCUG- -5'
23780 3' -69.5 NC_005261.1 + 1571 0.68 0.224606
Target:  5'- aGCGGCgCgCCgaGCCCCCaGCGguuGGCGGCg -3'
miRNA:   3'- -UGCCG-GaGGggCGGGGG-CGC---CCGCUG- -5'
23780 3' -69.5 NC_005261.1 + 1610 0.66 0.298776
Target:  5'- cUGGCCgCCUCGCCCuCCGCGaagucCGGCu -3'
miRNA:   3'- uGCCGGaGGGGCGGG-GGCGCcc---GCUG- -5'
23780 3' -69.5 NC_005261.1 + 1666 0.66 0.305206
Target:  5'- cGCGGCCaugUCCuuGCgCCCGuCGagccGCGGCa -3'
miRNA:   3'- -UGCCGG---AGGggCGgGGGC-GCc---CGCUG- -5'
23780 3' -69.5 NC_005261.1 + 2259 0.71 0.141345
Target:  5'- -aGGCCgccggCgCUCGUCCUCGcCGGGCGGCg -3'
miRNA:   3'- ugCCGGa----G-GGGCGGGGGC-GCCCGCUG- -5'
23780 3' -69.5 NC_005261.1 + 2397 0.73 0.103466
Target:  5'- gGCGGCgagcgCgCCCGCgggCCCCGCGcGGCGGCg -3'
miRNA:   3'- -UGCCGga---G-GGGCG---GGGGCGC-CCGCUG- -5'
23780 3' -69.5 NC_005261.1 + 2768 0.74 0.083073
Target:  5'- -gGGCCUCgaggCCCGCCCCCGagGGGCuGCc -3'
miRNA:   3'- ugCCGGAG----GGGCGGGGGCg-CCCGcUG- -5'
23780 3' -69.5 NC_005261.1 + 2814 0.69 0.200523
Target:  5'- -gGGCCgggcggCCCCaGCCCgaGCucGGGCGGCa -3'
miRNA:   3'- ugCCGGa-----GGGG-CGGGggCG--CCCGCUG- -5'
23780 3' -69.5 NC_005261.1 + 2946 0.66 0.338938
Target:  5'- cGCGGCCgggCUCCGgCCCgGacuaGGGCccgGGCu -3'
miRNA:   3'- -UGCCGGa--GGGGCgGGGgCg---CCCG---CUG- -5'
23780 3' -69.5 NC_005261.1 + 3000 0.69 0.191535
Target:  5'- gGCGGCCcggCgCCgggGCUCCCGCGGGCc-- -3'
miRNA:   3'- -UGCCGGa--GgGG---CGGGGGCGCCCGcug -5'
23780 3' -69.5 NC_005261.1 + 3383 0.66 0.338938
Target:  5'- cGCGGCCgccagCCgCGCCggcacuuccgCCgGCGGGCuGAa -3'
miRNA:   3'- -UGCCGGa----GGgGCGG----------GGgCGCCCG-CUg -5'
23780 3' -69.5 NC_005261.1 + 4063 0.68 0.219601
Target:  5'- cGCGGCCauggcgUCCCCGa-CCgGCGGcaGCGGCg -3'
miRNA:   3'- -UGCCGG------AGGGGCggGGgCGCC--CGCUG- -5'
23780 3' -69.5 NC_005261.1 + 4291 0.69 0.214691
Target:  5'- cACGGCCgcgggCCCCGCggCCgCCGCGuagcgcGCGGCc -3'
miRNA:   3'- -UGCCGGa----GGGGCG--GG-GGCGCc-----CGCUG- -5'
23780 3' -69.5 NC_005261.1 + 4503 0.68 0.224101
Target:  5'- cGCGGgC-CCCagucgcgCGCCCgCGCGGGCGcCg -3'
miRNA:   3'- -UGCCgGaGGG-------GCGGGgGCGCCCGCuG- -5'
23780 3' -69.5 NC_005261.1 + 4841 0.68 0.229708
Target:  5'- gGCGGCgUCCgCGCCgCaGCcucaaGGGCGGCg -3'
miRNA:   3'- -UGCCGgAGGgGCGGgGgCG-----CCCGCUG- -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.