miRNA display CGI


Results 1 - 20 of 54 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
13959 3' -64.2 NC_003521.1 + 27631 1.12 0.000544
Target:  5'- gGCCCCCCGGCUGGAGCCUGGUGCUCCa -3'
miRNA:   3'- -CGGGGGGCCGACCUCGGACCACGAGG- -5'
13959 3' -64.2 NC_003521.1 + 111810 0.78 0.141603
Target:  5'- uGCCCUCUGGCggcgccagcgagaucUGGAGCgUGGUGC-CCa -3'
miRNA:   3'- -CGGGGGGCCG---------------ACCUCGgACCACGaGG- -5'
13959 3' -64.2 NC_003521.1 + 229163 0.76 0.198928
Target:  5'- aGUCCCCCaGCcGG-GCCcggcUGGUGCUCCu -3'
miRNA:   3'- -CGGGGGGcCGaCCuCGG----ACCACGAGG- -5'
13959 3' -64.2 NC_003521.1 + 50572 0.74 0.238269
Target:  5'- uGCCuCCCUGGCUgaGGAGCgaGGUGCg-- -3'
miRNA:   3'- -CGG-GGGGCCGA--CCUCGgaCCACGagg -5'
13959 3' -64.2 NC_003521.1 + 34843 0.72 0.329294
Target:  5'- cGCCUgcagCCCGGCgucAGCCUGGUGCaCCc -3'
miRNA:   3'- -CGGG----GGGCCGaccUCGGACCACGaGG- -5'
13959 3' -64.2 NC_003521.1 + 223409 0.71 0.379054
Target:  5'- gGCCCugcguaaCCCGGCcaacUGGcuCCUGGUGCUgCg -3'
miRNA:   3'- -CGGG-------GGGCCG----ACCucGGACCACGAgG- -5'
13959 3' -64.2 NC_003521.1 + 100125 0.71 0.392839
Target:  5'- aCCCCgCGGCUGGcgguccugcgggaaGGCCgUGGgGCUCUu -3'
miRNA:   3'- cGGGGgGCCGACC--------------UCGG-ACCaCGAGG- -5'
13959 3' -64.2 NC_003521.1 + 28534 0.7 0.410919
Target:  5'- uGCCCaugCCGGCcuucgcccUGGccAGCCUGGUGgaCCc -3'
miRNA:   3'- -CGGGg--GGCCG--------ACC--UCGGACCACgaGG- -5'
13959 3' -64.2 NC_003521.1 + 144121 0.7 0.410919
Target:  5'- aCCgCCgCGGcCUGGAcgaggugcGCCUGG-GCUCCg -3'
miRNA:   3'- cGGgGG-GCC-GACCU--------CGGACCaCGAGG- -5'
13959 3' -64.2 NC_003521.1 + 49894 0.7 0.435261
Target:  5'- uGCCCCCC-GCUGGA-CCaGGaGCUCg -3'
miRNA:   3'- -CGGGGGGcCGACCUcGGaCCaCGAGg -5'
13959 3' -64.2 NC_003521.1 + 44030 0.7 0.443559
Target:  5'- cGCCCaccuaCCuGCUGGAGucCCUGGUGgacUUCCa -3'
miRNA:   3'- -CGGGg----GGcCGACCUC--GGACCAC---GAGG- -5'
13959 3' -64.2 NC_003521.1 + 56234 0.69 0.460416
Target:  5'- gGCCCCUgcacauCGGCguggUGGGGCUgcacacGGUGCUCa -3'
miRNA:   3'- -CGGGGG------GCCG----ACCUCGGa-----CCACGAGg -5'
13959 3' -64.2 NC_003521.1 + 138092 0.69 0.468972
Target:  5'- gGCCCuCCCaGGCcGaGGUCUGcGUGCUCUa -3'
miRNA:   3'- -CGGG-GGG-CCGaCcUCGGAC-CACGAGG- -5'
13959 3' -64.2 NC_003521.1 + 166137 0.69 0.477607
Target:  5'- cGCCgCCCGagcacgugcaccGCUGGAGCUUccuGUGCUCg -3'
miRNA:   3'- -CGGgGGGC------------CGACCUCGGAc--CACGAGg -5'
13959 3' -64.2 NC_003521.1 + 153334 0.69 0.486321
Target:  5'- gGCCcgggCCCCGGCggcggaGGAgGCCUGGggGCcgCCu -3'
miRNA:   3'- -CGG----GGGGCCGa-----CCU-CGGACCa-CGa-GG- -5'
13959 3' -64.2 NC_003521.1 + 119898 0.69 0.49511
Target:  5'- cGCCCCgCGGgUGG-GCCUGGaacagGUggaugCCg -3'
miRNA:   3'- -CGGGGgGCCgACCuCGGACCa----CGa----GG- -5'
13959 3' -64.2 NC_003521.1 + 26029 0.69 0.503969
Target:  5'- aGCCCCUgGGCU---GCCUGGUGgUgCCc -3'
miRNA:   3'- -CGGGGGgCCGAccuCGGACCACgA-GG- -5'
13959 3' -64.2 NC_003521.1 + 43863 0.69 0.504859
Target:  5'- cGCCCCggCCGGCUcccGGGCCgucgcccacgcuaccGGUGCUgCCg -3'
miRNA:   3'- -CGGGG--GGCCGAc--CUCGGa--------------CCACGA-GG- -5'
13959 3' -64.2 NC_003521.1 + 140340 0.69 0.512897
Target:  5'- uGCaCCCCGaGCUGG-GCCUGGcGCa-- -3'
miRNA:   3'- -CGgGGGGC-CGACCuCGGACCaCGagg -5'
13959 3' -64.2 NC_003521.1 + 121895 0.68 0.521889
Target:  5'- gGgCUCCUGGCUGGGGCagaUGGcccgGC-CCg -3'
miRNA:   3'- -CgGGGGGCCGACCUCGg--ACCa---CGaGG- -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.