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 + 235831 0.66 0.652022
Target:  5'- cGUCCCgCGGgUuguuguaccacaGGGGCCUGacGUGCUCg -3'
miRNA:   3'- -CGGGGgGCCgA------------CCUCGGAC--CACGAGg -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 + 227139 0.66 0.652022
Target:  5'- -gCCCCCGcagcugcccucGCUGGAGCCcugaUGGgccUGC-CCg -3'
miRNA:   3'- cgGGGGGC-----------CGACCUCGG----ACC---ACGaGG- -5'
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 + 224567 0.66 0.680116
Target:  5'- cGCUCggCUCGGCUGGAGCgcaacggaccCUGcGUGCaCCu -3'
miRNA:   3'- -CGGG--GGGCCGACCUCG----------GAC-CACGaGG- -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 + 219470 0.67 0.605012
Target:  5'- uGCUgCCUGGCgaccgccaucaUGG-GCCUGGgGCUCa -3'
miRNA:   3'- -CGGgGGGCCG-----------ACCuCGGACCaCGAGg -5'
13959 3' -64.2 NC_003521.1 + 218725 0.67 0.602198
Target:  5'- uGCgCCCaCGGCgUGGuGCCggccauguccuccgUGGUGCcgCCg -3'
miRNA:   3'- -CGgGGG-GCCG-ACCuCGG--------------ACCACGa-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 + 212812 0.68 0.558421
Target:  5'- uCCCCCUGGCcgucgUGG-GCCU-GUGUUUCg -3'
miRNA:   3'- cGGGGGGCCG-----ACCuCGGAcCACGAGG- -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 + 209429 0.66 0.670775
Target:  5'- gGCUCCCCGGCgcgagGuGAGCCgcgauucgGCUaCCu -3'
miRNA:   3'- -CGGGGGGCCGa----C-CUCGGacca----CGA-GG- -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 + 168123 0.67 0.614404
Target:  5'- uGCCgaCCUcaugaagaagCGGCcgcggGGGGCCUGGccGCUCCu -3'
miRNA:   3'- -CGG--GGG----------GCCGa----CCUCGGACCa-CGAGG- -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 + 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 + 151928 0.66 0.652022
Target:  5'- aCCCUggaCGGCUGGgccgugGGCCUGGcccugcuggacgUGCUCa -3'
miRNA:   3'- cGGGGg--GCCGACC------UCGGACC------------ACGAGg -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 + 150458 0.66 0.642621
Target:  5'- uCCUCCUGGuCUGGGgcggcgagcGCCUGGUGgggCCc -3'
miRNA:   3'- cGGGGGGCC-GACCU---------CGGACCACga-GG- -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.