miRNA display CGI


Results 1 - 20 of 28 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
12139 3' -55.2 NC_003309.1 + 23764 1.09 0.000786
Target:  5'- aUAGACGAGCAACGCGCGCAGCCAAUCg -3'
miRNA:   3'- -AUCUGCUCGUUGCGCGCGUCGGUUAG- -5'
12139 3' -55.2 NC_003309.1 + 43695 0.76 0.180691
Target:  5'- -cGGCuAGCAGCGCGCGC-GCCAGaUCg -3'
miRNA:   3'- auCUGcUCGUUGCGCGCGuCGGUU-AG- -5'
12139 3' -55.2 NC_003309.1 + 53305 0.74 0.249322
Target:  5'- cGGGCGGGCAACGaCGgGCGgGCCAccaccacGUCa -3'
miRNA:   3'- aUCUGCUCGUUGC-GCgCGU-CGGU-------UAG- -5'
12139 3' -55.2 NC_003309.1 + 23468 0.73 0.277536
Target:  5'- gUAGAa---CAGCGUGUGCGGCCGAUCg -3'
miRNA:   3'- -AUCUgcucGUUGCGCGCGUCGGUUAG- -5'
12139 3' -55.2 NC_003309.1 + 1300 0.73 0.291451
Target:  5'- --cAUGAGCGgcugucgACGCGCGCccauGCCAGUCa -3'
miRNA:   3'- aucUGCUCGU-------UGCGCGCGu---CGGUUAG- -5'
12139 3' -55.2 NC_003309.1 + 5332 0.72 0.30746
Target:  5'- gAGAgCG-GCAGCGUGCGCGcGCCGAg- -3'
miRNA:   3'- aUCU-GCuCGUUGCGCGCGU-CGGUUag -5'
12139 3' -55.2 NC_003309.1 + 5161 0.72 0.339788
Target:  5'- gAGGCGAGC--UGCGCGUcGCCGcgCg -3'
miRNA:   3'- aUCUGCUCGuuGCGCGCGuCGGUuaG- -5'
12139 3' -55.2 NC_003309.1 + 47395 0.71 0.348246
Target:  5'- -cGACGGGCAACaGuCGgGCAGCuCGAUUg -3'
miRNA:   3'- auCUGCUCGUUG-C-GCgCGUCG-GUUAG- -5'
12139 3' -55.2 NC_003309.1 + 11206 0.71 0.365609
Target:  5'- -cGACGccuccuGCuuCGUGCGCAGCCGcUCg -3'
miRNA:   3'- auCUGCu-----CGuuGCGCGCGUCGGUuAG- -5'
12139 3' -55.2 NC_003309.1 + 26347 0.7 0.402085
Target:  5'- ----aGAGCGACGCGCGCAcgacgacgGCCGcUCc -3'
miRNA:   3'- aucugCUCGUUGCGCGCGU--------CGGUuAG- -5'
12139 3' -55.2 NC_003309.1 + 18553 0.7 0.42117
Target:  5'- gAGACGGuGCGccugcgccuGCGaCGUGCAGCCGAa- -3'
miRNA:   3'- aUCUGCU-CGU---------UGC-GCGCGUCGGUUag -5'
12139 3' -55.2 NC_003309.1 + 36460 0.7 0.429934
Target:  5'- -cGGCGAGCAAUugaaagaGCGCGUcaaGGCCGcgCu -3'
miRNA:   3'- auCUGCUCGUUG-------CGCGCG---UCGGUuaG- -5'
12139 3' -55.2 NC_003309.1 + 29595 0.7 0.440791
Target:  5'- gUGGAuuCGAGCGGCGUGCG-GGUCGAUUu -3'
miRNA:   3'- -AUCU--GCUCGUUGCGCGCgUCGGUUAG- -5'
12139 3' -55.2 NC_003309.1 + 49469 0.69 0.46092
Target:  5'- -cGcCGAGC-ACGCGCGaauGCCGAUUg -3'
miRNA:   3'- auCuGCUCGuUGCGCGCgu-CGGUUAG- -5'
12139 3' -55.2 NC_003309.1 + 22594 0.69 0.46092
Target:  5'- cAGuguCGGaCAGCGaCGCGCAGCCGcUCa -3'
miRNA:   3'- aUCu--GCUcGUUGC-GCGCGUCGGUuAG- -5'
12139 3' -55.2 NC_003309.1 + 22467 0.69 0.481525
Target:  5'- -cGGCG-GCAuCGUGCGCGG-CGAUCg -3'
miRNA:   3'- auCUGCuCGUuGCGCGCGUCgGUUAG- -5'
12139 3' -55.2 NC_003309.1 + 6148 0.68 0.513238
Target:  5'- -uGACGGGCcGCGCGauuGCAGCU--UCg -3'
miRNA:   3'- auCUGCUCGuUGCGCg--CGUCGGuuAG- -5'
12139 3' -55.2 NC_003309.1 + 47011 0.68 0.545773
Target:  5'- -cGGCGAuuGGCGCGUcuucGCAGCCAacuuGUCg -3'
miRNA:   3'- auCUGCUcgUUGCGCG----CGUCGGU----UAG- -5'
12139 3' -55.2 NC_003309.1 + 25999 0.67 0.578943
Target:  5'- cGGGCGAaccgGCAauGCGUGCGUAGUC-GUCc -3'
miRNA:   3'- aUCUGCU----CGU--UGCGCGCGUCGGuUAG- -5'
12139 3' -55.2 NC_003309.1 + 22995 0.67 0.601299
Target:  5'- --aGCGAGuCGACGCuuGCcGCCGAUCc -3'
miRNA:   3'- aucUGCUC-GUUGCGcgCGuCGGUUAG- -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.