miRNA display CGI


Results 1 - 20 of 32 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
27417 3' -65.5 NC_005869.1 + 24955 0.66 0.164576
Target:  5'- --cGCCCCuCGAGGACCUCCugguggucagcgacgAGCAgCu -3'
miRNA:   3'- uacCGGGG-GCUCCUGGGGG---------------UCGUgGu -5'
27417 3' -65.5 NC_005869.1 + 7650 0.66 0.16282
Target:  5'- -gGGUCCUCGGGGuCgUCCGGCagGCCGg -3'
miRNA:   3'- uaCCGGGGGCUCCuGgGGGUCG--UGGU- -5'
27417 3' -65.5 NC_005869.1 + 7362 0.66 0.158078
Target:  5'- -gGGUCCUCGGGGGCCaugacgcccuccuCCCAGU-CCGc -3'
miRNA:   3'- uaCCGGGGGCUCCUGG-------------GGGUCGuGGU- -5'
27417 3' -65.5 NC_005869.1 + 22182 0.66 0.155963
Target:  5'- cUGGCUcgcgaagcgccgagaCCCGucGGCCgUCAGCGCCAu -3'
miRNA:   3'- uACCGG---------------GGGCucCUGGgGGUCGUGGU- -5'
27417 3' -65.5 NC_005869.1 + 17118 0.66 0.154291
Target:  5'- cAUGGCCaCCaGGGGcGCCUCCAGgACUg -3'
miRNA:   3'- -UACCGG-GGgCUCC-UGGGGGUCgUGGu -5'
27417 3' -65.5 NC_005869.1 + 26158 0.66 0.153875
Target:  5'- --cGCCCCUccgGAGGaaGCCCauccgcagcagcaCCAGCACCAg -3'
miRNA:   3'- uacCGGGGG---CUCC--UGGG-------------GGUCGUGGU- -5'
27417 3' -65.5 NC_005869.1 + 33838 0.66 0.150179
Target:  5'- -cGGCCCCgccccgcgGAGGACcgCCCCAGgGCUc -3'
miRNA:   3'- uaCCGGGGg-------CUCCUG--GGGGUCgUGGu -5'
27417 3' -65.5 NC_005869.1 + 4564 0.66 0.150179
Target:  5'- uUGuGUCCgCCGAGGuCCUCCAuGCACUc -3'
miRNA:   3'- uAC-CGGG-GGCUCCuGGGGGU-CGUGGu -5'
27417 3' -65.5 NC_005869.1 + 12376 0.66 0.150179
Target:  5'- -aGGCCCCCGcugGGGAgCgCgGGCACg- -3'
miRNA:   3'- uaCCGGGGGC---UCCUgGgGgUCGUGgu -5'
27417 3' -65.5 NC_005869.1 + 8684 0.67 0.134713
Target:  5'- -cGGUCCUCGAGGcacugcugccagACCCCCAugGCggucuGCCAg -3'
miRNA:   3'- uaCCGGGGGCUCC------------UGGGGGU--CG-----UGGU- -5'
27417 3' -65.5 NC_005869.1 + 18191 0.67 0.134713
Target:  5'- -aGGCgCCCCGuacACCUCgGGCGCCAa -3'
miRNA:   3'- uaCCG-GGGGCuccUGGGGgUCGUGGU- -5'
27417 3' -65.5 NC_005869.1 + 30336 0.67 0.134713
Target:  5'- --cGCCUCCGAGGccgugGCCCgCAGCugUAu -3'
miRNA:   3'- uacCGGGGGCUCC-----UGGGgGUCGugGU- -5'
27417 3' -65.5 NC_005869.1 + 24392 0.67 0.124091
Target:  5'- -aGGUCCUgcagGAGGccGCCCCCGGCGCa- -3'
miRNA:   3'- uaCCGGGGg---CUCC--UGGGGGUCGUGgu -5'
27417 3' -65.5 NC_005869.1 + 9982 0.68 0.117446
Target:  5'- -gGGCCgCgGAGGACCCCagcucacuGGCugCGc -3'
miRNA:   3'- uaCCGGgGgCUCCUGGGGg-------UCGugGU- -5'
27417 3' -65.5 NC_005869.1 + 26602 0.68 0.114249
Target:  5'- -cGGCCCgCCGAc-GCUCCUGGCGCCGc -3'
miRNA:   3'- uaCCGGG-GGCUccUGGGGGUCGUGGU- -5'
27417 3' -65.5 NC_005869.1 + 26038 0.68 0.108098
Target:  5'- -cGGCucCCCCGAGGGCaCCCGcCGCCu -3'
miRNA:   3'- uaCCG--GGGGCUCCUGgGGGUcGUGGu -5'
27417 3' -65.5 NC_005869.1 + 10737 0.68 0.105141
Target:  5'- -cGGCCCCCGAGcGGCaCCCacgGGUGCa- -3'
miRNA:   3'- uaCCGGGGGCUC-CUG-GGGg--UCGUGgu -5'
27417 3' -65.5 NC_005869.1 + 14607 0.68 0.102259
Target:  5'- cUGGCCUacaacuaCGGGGACCCggCCacgGGCACCGc -3'
miRNA:   3'- uACCGGGg------GCUCCUGGG--GG---UCGUGGU- -5'
27417 3' -65.5 NC_005869.1 + 16513 0.69 0.100287
Target:  5'- cUGGCCCCCaagcgucgucugcagGAGGuggugguggagccGCCCgcuCCAGCACCc -3'
miRNA:   3'- uACCGGGGG---------------CUCC-------------UGGG---GGUCGUGGu -5'
27417 3' -65.5 NC_005869.1 + 16184 0.69 0.096718
Target:  5'- -cGGCCCCCGGcGGuACCgCCGccugccgccgcuGCGCCGa -3'
miRNA:   3'- uaCCGGGGGCU-CC-UGGgGGU------------CGUGGU- -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.