miRNA display CGI


Results 1 - 20 of 22 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
18438 5' -59.3 NC_004681.1 + 40201 0.66 0.604802
Target:  5'- gGCGACCCCCGG----GGUGCa--GUCa -3'
miRNA:   3'- -CGCUGGGGGUCggaaCCGCGaagCAG- -5'
18438 5' -59.3 NC_004681.1 + 60717 0.66 0.594331
Target:  5'- uGCGACCCCgCGugacaccuacGCCgauuccggUGGCGCgucUCGg- -3'
miRNA:   3'- -CGCUGGGG-GU----------CGGa-------ACCGCGa--AGCag -5'
18438 5' -59.3 NC_004681.1 + 68602 0.66 0.57037
Target:  5'- gGCGugCCgCgAGCCauucagUGGCGgaauugagguucgaCUUCGUCa -3'
miRNA:   3'- -CGCugGG-GgUCGGa-----ACCGC--------------GAAGCAG- -5'
18438 5' -59.3 NC_004681.1 + 50060 0.67 0.532369
Target:  5'- uGCGGCCCuucucggguCC-GCgCUUGGCGaCUcCGUCa -3'
miRNA:   3'- -CGCUGGG---------GGuCG-GAACCGC-GAaGCAG- -5'
18438 5' -59.3 NC_004681.1 + 30678 0.67 0.532369
Target:  5'- aGCGAa--CC-GCCUUGGCGCUUgCGcCg -3'
miRNA:   3'- -CGCUgggGGuCGGAACCGCGAA-GCaG- -5'
18438 5' -59.3 NC_004681.1 + 63019 0.67 0.522248
Target:  5'- uCGACCa-CAGCCUUGG-GCUUCa-- -3'
miRNA:   3'- cGCUGGggGUCGGAACCgCGAAGcag -5'
18438 5' -59.3 NC_004681.1 + 9371 0.67 0.512203
Target:  5'- uGCcGCCCauguaCUGGCCaUUGGCGUccUUCGUCa -3'
miRNA:   3'- -CGcUGGG-----GGUCGG-AACCGCG--AAGCAG- -5'
18438 5' -59.3 NC_004681.1 + 22883 0.67 0.502239
Target:  5'- aGCGGCCCacgacaGGCCccgUGGUGgggUCGUCa -3'
miRNA:   3'- -CGCUGGGgg----UCGGa--ACCGCga-AGCAG- -5'
18438 5' -59.3 NC_004681.1 + 2998 0.67 0.492361
Target:  5'- -aGGCCCCCaggauguaggGGUCgagcgggaggGGgGCUUCGUCa -3'
miRNA:   3'- cgCUGGGGG----------UCGGaa--------CCgCGAAGCAG- -5'
18438 5' -59.3 NC_004681.1 + 39434 0.68 0.487455
Target:  5'- aGCGGCCCCUcggAGCCguguccagcgcGGCGCcgcgcgcgcagguaUUUGUCg -3'
miRNA:   3'- -CGCUGGGGG---UCGGaa---------CCGCG--------------AAGCAG- -5'
18438 5' -59.3 NC_004681.1 + 49399 0.68 0.463285
Target:  5'- uGCaGACCgCCC-GCCUUGcGCGCcUCGg- -3'
miRNA:   3'- -CG-CUGG-GGGuCGGAAC-CGCGaAGCag -5'
18438 5' -59.3 NC_004681.1 + 47218 0.68 0.434214
Target:  5'- cGCGGCCCUCGGCgUUcucgucgcucagcGGCgGCggcUCGUCc -3'
miRNA:   3'- -CGCUGGGGGUCGgAA-------------CCG-CGa--AGCAG- -5'
18438 5' -59.3 NC_004681.1 + 1219 0.69 0.425973
Target:  5'- cGCGGCCUUCguagauGGCCUUgaGGCGCU-CGUa -3'
miRNA:   3'- -CGCUGGGGG------UCGGAA--CCGCGAaGCAg -5'
18438 5' -59.3 NC_004681.1 + 55495 0.69 0.390508
Target:  5'- aCGACCgCCCAGCagUGGaCGacgUCGUCg -3'
miRNA:   3'- cGCUGG-GGGUCGgaACC-GCga-AGCAG- -5'
18438 5' -59.3 NC_004681.1 + 13679 0.69 0.381948
Target:  5'- cGUGGCCgCCCgcGGCCUUGaagcGCGCguaCGUCu -3'
miRNA:   3'- -CGCUGG-GGG--UCGGAAC----CGCGaa-GCAG- -5'
18438 5' -59.3 NC_004681.1 + 38128 0.7 0.333272
Target:  5'- aUGGCCCUCGGCCUacguUGGCGagucaUUCGg- -3'
miRNA:   3'- cGCUGGGGGUCGGA----ACCGCg----AAGCag -5'
18438 5' -59.3 NC_004681.1 + 44534 0.7 0.333272
Target:  5'- -aGACCCCagcCAGCCacgcugGGCGCgcgCGUCc -3'
miRNA:   3'- cgCUGGGG---GUCGGaa----CCGCGaa-GCAG- -5'
18438 5' -59.3 NC_004681.1 + 31580 0.71 0.325615
Target:  5'- cGCaGAagcaCCCCAGCCggucacCGCUUCGUCa -3'
miRNA:   3'- -CG-CUg---GGGGUCGGaacc--GCGAAGCAG- -5'
18438 5' -59.3 NC_004681.1 + 33722 0.72 0.256244
Target:  5'- uGCG-CCUCCAGgucggcgaCCUUGGCGUUgaugUCGUCg -3'
miRNA:   3'- -CGCuGGGGGUC--------GGAACCGCGA----AGCAG- -5'
18438 5' -59.3 NC_004681.1 + 40176 0.74 0.199457
Target:  5'- aUGAUCUCCAGCCUgucgaucugGGUGCUggCGUCg -3'
miRNA:   3'- cGCUGGGGGUCGGAa--------CCGCGAa-GCAG- -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.