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 + 133604 0.66 0.689422
Target:  5'- aGCCUCCU-GCUGGAGCaCUGuGUGggCa -3'
miRNA:   3'- -CGGGGGGcCGACCUCG-GAC-CACgaGg -5'
13959 3' -64.2 NC_003521.1 + 149611 0.66 0.689422
Target:  5'- cGCCCUCaugcgcgaaaCGGCgcUGGAcGCCgccggcgaGGUGCUCUc -3'
miRNA:   3'- -CGGGGG----------GCCG--ACCU-CGGa-------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 + 124189 0.66 0.680116
Target:  5'- cGCCUgCCGGCUGGGGgUgagcGG-GC-CCu -3'
miRNA:   3'- -CGGGgGGCCGACCUCgGa---CCaCGaGG- -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 + 708 0.66 0.680116
Target:  5'- uGCCUCaCCGGCUGGcuuaccgccGGCUUGGc-CUCg -3'
miRNA:   3'- -CGGGG-GGCCGACC---------UCGGACCacGAGg -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 + 92664 0.66 0.670775
Target:  5'- uCCCCCCGGUcGaGcAGCCUcggcgaGGUGCcgggUCCc -3'
miRNA:   3'- cGGGGGGCCGaC-C-UCGGA------CCACG----AGG- -5'
13959 3' -64.2 NC_003521.1 + 80415 0.66 0.667031
Target:  5'- gGCCCUCagCGGCUGGAcgcgcagcaccgGCCgcaaaaacacaagGGcGCUCCc -3'
miRNA:   3'- -CGGGGG--GCCGACCU------------CGGa------------CCaCGAGG- -5'
13959 3' -64.2 NC_003521.1 + 79130 0.66 0.661408
Target:  5'- cGCCUggucaucgaCCGGC-GGAucaccaccuucGgCUGGUGCUCCg -3'
miRNA:   3'- -CGGGg--------GGCCGaCCU-----------CgGACCACGAGG- -5'
13959 3' -64.2 NC_003521.1 + 43050 0.66 0.661408
Target:  5'- aGCCgCCgGGCUGcacGGGCa-GGUGCUUg -3'
miRNA:   3'- -CGGgGGgCCGAC---CUCGgaCCACGAGg -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 + 151928 0.66 0.652022
Target:  5'- aCCCUggaCGGCUGGgccgugGGCCUGGcccugcuggacgUGCUCa -3'
miRNA:   3'- cGGGGg--GCCGACC------UCGGACC------------ACGAGg -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 + 235831 0.66 0.652022
Target:  5'- cGUCCCgCGGgUuguuguaccacaGGGGCCUGacGUGCUCg -3'
miRNA:   3'- -CGGGGgGCCgA------------CCUCGGAC--CACGAGg -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 + 150458 0.66 0.642621
Target:  5'- uCCUCCUGGuCUGGGgcggcgagcGCCUGGUGgggCCc -3'
miRNA:   3'- cGGGGGGCC-GACCU---------CGGACCACga-GG- -5'
13959 3' -64.2 NC_003521.1 + 148102 0.66 0.642621
Target:  5'- uGCaCCCCCGGCUGcacGGCaccGUGCaguUCCg -3'
miRNA:   3'- -CG-GGGGGCCGACc--UCGgacCACG---AGG- -5'
13959 3' -64.2 NC_003521.1 + 134470 0.66 0.633214
Target:  5'- aGCa-CCCGGau-GAGUUUGGUGCUCUg -3'
miRNA:   3'- -CGggGGGCCgacCUCGGACCACGAGG- -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.