miRNA display CGI


Results 1 - 20 of 21 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
188 5' -59.1 AC_000007.1 + 8520 0.66 0.354002
Target:  5'- cGCGcGGCGGGcGGUGG-GCcGCGggGGu -3'
miRNA:   3'- uCGU-CCGUCU-CCGCCgCGaCGCuuUC- -5'
188 5' -59.1 AC_000007.1 + 10449 0.66 0.345452
Target:  5'- cGGC-GGCGGuGGUggaGGCGC-GCGGAAa -3'
miRNA:   3'- -UCGuCCGUCuCCG---CCGCGaCGCUUUc -5'
188 5' -59.1 AC_000007.1 + 3851 0.66 0.342074
Target:  5'- cGCGGGCGGuGGCuGCaGCggcugaagcggcgGCGGAGGc -3'
miRNA:   3'- uCGUCCGUCuCCGcCG-CGa------------CGCUUUC- -5'
188 5' -59.1 AC_000007.1 + 10769 0.66 0.337051
Target:  5'- -cCAGGCGc-GGCGGCuGCUGCGcuAGc -3'
miRNA:   3'- ucGUCCGUcuCCGCCG-CGACGCuuUC- -5'
188 5' -59.1 AC_000007.1 + 5216 0.67 0.297299
Target:  5'- cGCGGGUuGGGGCGGCuuucGCUGUa---- -3'
miRNA:   3'- uCGUCCGuCUCCGCCG----CGACGcuuuc -5'
188 5' -59.1 AC_000007.1 + 11244 0.67 0.297299
Target:  5'- -cCAGGUAGugccGGGCccGGCGCcGCGggGGu -3'
miRNA:   3'- ucGUCCGUC----UCCG--CCGCGaCGCuuUC- -5'
188 5' -59.1 AC_000007.1 + 23936 0.67 0.297299
Target:  5'- cGCGGGgAGGcGGCGGCaCgGCGAcGGg -3'
miRNA:   3'- uCGUCCgUCU-CCGCCGcGaCGCUuUC- -5'
188 5' -59.1 AC_000007.1 + 2156 0.68 0.261283
Target:  5'- cAGCAGGaggaAGccAGGCGGCGgCgGCGgcAGg -3'
miRNA:   3'- -UCGUCCg---UC--UCCGCCGC-GaCGCuuUC- -5'
188 5' -59.1 AC_000007.1 + 23959 0.69 0.241428
Target:  5'- aAGC-GGCuGAGGCGGCGUcuCGAGu- -3'
miRNA:   3'- -UCGuCCGuCUCCGCCGCGacGCUUuc -5'
188 5' -59.1 AC_000007.1 + 8624 0.69 0.235094
Target:  5'- gAGgGGGCAGGGGCacgucGGCGCcGCGn--- -3'
miRNA:   3'- -UCgUCCGUCUCCG-----CCGCGaCGCuuuc -5'
188 5' -59.1 AC_000007.1 + 15053 0.69 0.228901
Target:  5'- cGCAGGCGGcGGCaacaacaguGGCaGCggcGCGGAAGa -3'
miRNA:   3'- uCGUCCGUCuCCG---------CCG-CGa--CGCUUUC- -5'
188 5' -59.1 AC_000007.1 + 26842 0.7 0.184189
Target:  5'- cAGCAGGaGGAGGa-GCGCUGCGucuGGc -3'
miRNA:   3'- -UCGUCCgUCUCCgcCGCGACGCuu-UC- -5'
188 5' -59.1 AC_000007.1 + 9730 0.7 0.182672
Target:  5'- uGGCGGGCGGcagcGGGUGGCGgUcgggguuguuucugGCGGAGGu -3'
miRNA:   3'- -UCGUCCGUC----UCCGCCGCgA--------------CGCUUUC- -5'
188 5' -59.1 AC_000007.1 + 24191 0.72 0.14737
Target:  5'- cGGCAucGGUGGAGGCGGUGgUgGCGAAc- -3'
miRNA:   3'- -UCGU--CCGUCUCCGCCGCgA-CGCUUuc -5'
188 5' -59.1 AC_000007.1 + 12318 0.73 0.117378
Target:  5'- cGGCGGuGC--GGGCGGCGCUGC-AGAGc -3'
miRNA:   3'- -UCGUC-CGucUCCGCCGCGACGcUUUC- -5'
188 5' -59.1 AC_000007.1 + 26516 0.73 0.117378
Target:  5'- -aCAGGCAGugccGGCGGCGCcugaggaGCGGAGGu -3'
miRNA:   3'- ucGUCCGUCu---CCGCCGCGa------CGCUUUC- -5'
188 5' -59.1 AC_000007.1 + 26290 0.73 0.110821
Target:  5'- uGGguGGCGGcGGCGGCaGCUGCa---- -3'
miRNA:   3'- -UCguCCGUCuCCGCCG-CGACGcuuuc -5'
188 5' -59.1 AC_000007.1 + 13784 0.73 0.107673
Target:  5'- cAGCAGGCGcGGGCgGGUGgUGCGAGu- -3'
miRNA:   3'- -UCGUCCGUcUCCG-CCGCgACGCUUuc -5'
188 5' -59.1 AC_000007.1 + 17258 0.74 0.104609
Target:  5'- cGguGGCAGAugccgcggugcaGGCGGcCGCUGCGGc-- -3'
miRNA:   3'- uCguCCGUCU------------CCGCC-GCGACGCUuuc -5'
188 5' -59.1 AC_000007.1 + 8652 0.74 0.090483
Target:  5'- cGCGGGCAGGaGCuGGUGCUGCGcgcGGAGg -3'
miRNA:   3'- uCGUCCGUCUcCG-CCGCGACGC---UUUC- -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.