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 + 224695 0.66 0.680116
Target:  5'- gGCgCCCgGGCgugUGGAaguucacgucccGCCcgUGGUGCUCg -3'
miRNA:   3'- -CGgGGGgCCG---ACCU------------CGG--ACCACGAGg -5'
13959 3' -64.2 NC_003521.1 + 134470 0.66 0.633214
Target:  5'- aGCa-CCCGGau-GAGUUUGGUGCUCUg -3'
miRNA:   3'- -CGggGGGCCgacCUCGGACCACGAGG- -5'
13959 3' -64.2 NC_003521.1 + 101571 0.66 0.633214
Target:  5'- cGUCCCCCcGCUccgcgcgaGGAGCCccguacaggUGGUaGCUCa -3'
miRNA:   3'- -CGGGGGGcCGA--------CCUCGG---------ACCA-CGAGg -5'
13959 3' -64.2 NC_003521.1 + 150458 0.66 0.642621
Target:  5'- uCCUCCUGGuCUGGGgcggcgagcGCCUGGUGgggCCc -3'
miRNA:   3'- cGGGGGGCC-GACCU---------CGGACCACga-GG- -5'
13959 3' -64.2 NC_003521.1 + 215427 0.66 0.652022
Target:  5'- aGCCCUCCGuGaagcaGAGCCgcgGGUGCUggcgCCa -3'
miRNA:   3'- -CGGGGGGC-Cgac--CUCGGa--CCACGA----GG- -5'
13959 3' -64.2 NC_003521.1 + 211716 0.66 0.661408
Target:  5'- uGCCgCCgUGGCggaucacgcacUGGAcGCCaGaGUGCUCCa -3'
miRNA:   3'- -CGG-GGgGCCG-----------ACCU-CGGaC-CACGAGG- -5'
13959 3' -64.2 NC_003521.1 + 92664 0.66 0.670775
Target:  5'- uCCCCCCGGUcGaGcAGCCUcggcgaGGUGCcgggUCCc -3'
miRNA:   3'- cGGGGGGCCGaC-C-UCGGA------CCACG----AGG- -5'
13959 3' -64.2 NC_003521.1 + 124189 0.66 0.680116
Target:  5'- cGCCUgCCGGCUGGGGgUgagcGG-GC-CCu -3'
miRNA:   3'- -CGGGgGGCCGACCUCgGa---CCaCGaGG- -5'
13959 3' -64.2 NC_003521.1 + 200058 0.66 0.680116
Target:  5'- uGCCUCaCCGGCUGGcuuaccgccGGCUUGGc-CUCg -3'
miRNA:   3'- -CGGGG-GGCCGACC---------UCGGACCacGAGg -5'
13959 3' -64.2 NC_003521.1 + 150667 0.67 0.576963
Target:  5'- gGCUCUCCGGCggcGGcGCCgcugcugcugGGUGCUgCu -3'
miRNA:   3'- -CGGGGGGCCGa--CCuCGGa---------CCACGAgG- -5'
13959 3' -64.2 NC_003521.1 + 166246 0.68 0.567673
Target:  5'- uGCCgCCCGGCgagcGGGCC--GUGCUCa -3'
miRNA:   3'- -CGGgGGGCCGac--CUCGGacCACGAGg -5'
13959 3' -64.2 NC_003521.1 + 40316 0.68 0.567673
Target:  5'- aGCCCCuuGGCc--AGCUcGGUGCgcgCCg -3'
miRNA:   3'- -CGGGGggCCGaccUCGGaCCACGa--GG- -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 + 44030 0.7 0.443559
Target:  5'- cGCCCaccuaCCuGCUGGAGucCCUGGUGgacUUCCa -3'
miRNA:   3'- -CGGGg----GGcCGACCUC--GGACCAC---GAGG- -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 + 119898 0.69 0.49511
Target:  5'- cGCCCCgCGGgUGG-GCCUGGaacagGUggaugCCg -3'
miRNA:   3'- -CGGGGgGCCgACCuCGGACCa----CGa----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 + 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.