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
1497 3' -56 NC_001335.1 + 32961 0.66 0.675747
Target:  5'- -cCCGAGccggCCcCGGCuccugAGCCUGaGACCg -3'
miRNA:   3'- uuGGCUCaa--GGaGCUG-----UCGGAC-CUGG- -5'
1497 3' -56 NC_001335.1 + 1921 0.66 0.664782
Target:  5'- -cUCGA--UCUUCGACAGgCUGGcCCa -3'
miRNA:   3'- uuGGCUcaAGGAGCUGUCgGACCuGG- -5'
1497 3' -56 NC_001335.1 + 33001 0.66 0.664782
Target:  5'- cACCG---UCUUCGACGGCUUuGGCCg -3'
miRNA:   3'- uUGGCucaAGGAGCUGUCGGAcCUGG- -5'
1497 3' -56 NC_001335.1 + 44215 0.66 0.658188
Target:  5'- gAGCCGAGUgaggggcacgggguuUCCuuUCGuugcGCGGCCUGGGu- -3'
miRNA:   3'- -UUGGCUCA---------------AGG--AGC----UGUCGGACCUgg -5'
1497 3' -56 NC_001335.1 + 36200 0.66 0.653787
Target:  5'- cGCgGAGgaggUCaCUCGACAccucgaccGCCgauUGGACCg -3'
miRNA:   3'- uUGgCUCa---AG-GAGCUGU--------CGG---ACCUGG- -5'
1497 3' -56 NC_001335.1 + 37590 0.66 0.642771
Target:  5'- aAGCCGA--UCCUCGGCuaucaaCC-GGACCa -3'
miRNA:   3'- -UUGGCUcaAGGAGCUGuc----GGaCCUGG- -5'
1497 3' -56 NC_001335.1 + 36323 0.66 0.642771
Target:  5'- aGGCCG-GUUCUcggUCGACGGCCgagucugGGAg- -3'
miRNA:   3'- -UUGGCuCAAGG---AGCUGUCGGa------CCUgg -5'
1497 3' -56 NC_001335.1 + 17790 0.66 0.642771
Target:  5'- uGCCGAaucCCUCGGCGGUgaaCUGG-CCg -3'
miRNA:   3'- uUGGCUcaaGGAGCUGUCG---GACCuGG- -5'
1497 3' -56 NC_001335.1 + 7154 0.66 0.620722
Target:  5'- aGGCCGAGU------ACGGCCUGGACg -3'
miRNA:   3'- -UUGGCUCAaggagcUGUCGGACCUGg -5'
1497 3' -56 NC_001335.1 + 27663 0.67 0.609707
Target:  5'- gGACCacGAGUUCUUCGACAuCCUcuACCa -3'
miRNA:   3'- -UUGG--CUCAAGGAGCUGUcGGAccUGG- -5'
1497 3' -56 NC_001335.1 + 7103 0.67 0.581182
Target:  5'- cGACCGGGUUaCCgUCGGCgucgaagugugaaaaGGCUacgGGGCCa -3'
miRNA:   3'- -UUGGCUCAA-GG-AGCUG---------------UCGGa--CCUGG- -5'
1497 3' -56 NC_001335.1 + 8984 0.67 0.576816
Target:  5'- gGGCUGAGUgguucaacgUCC-CGcACGGUCUGGGCg -3'
miRNA:   3'- -UUGGCUCA---------AGGaGC-UGUCGGACCUGg -5'
1497 3' -56 NC_001335.1 + 4678 0.69 0.4814
Target:  5'- -cCCGAGggUgUCGACugacugcucuGGCCUGGugCu -3'
miRNA:   3'- uuGGCUCaaGgAGCUG----------UCGGACCugG- -5'
1497 3' -56 NC_001335.1 + 47642 0.69 0.465208
Target:  5'- gAGCCGAG--CCUCGgucucggcguaguggGCAGCUUGGAUUa -3'
miRNA:   3'- -UUGGCUCaaGGAGC---------------UGUCGGACCUGG- -5'
1497 3' -56 NC_001335.1 + 2312 0.7 0.42221
Target:  5'- -uCgGAGa-CCUCGACGGucCCUGGACCc -3'
miRNA:   3'- uuGgCUCaaGGAGCUGUC--GGACCUGG- -5'
1497 3' -56 NC_001335.1 + 49807 0.7 0.42221
Target:  5'- aGGCCGAGUUUC-CGACGGC--GGugCg -3'
miRNA:   3'- -UUGGCUCAAGGaGCUGUCGgaCCugG- -5'
1497 3' -56 NC_001335.1 + 30485 0.7 0.412775
Target:  5'- uGGCUGAGgccaucUCCUUGAUGGCCUGcugcauGGCCg -3'
miRNA:   3'- -UUGGCUCa-----AGGAGCUGUCGGAC------CUGG- -5'
1497 3' -56 NC_001335.1 + 2197 0.75 0.211
Target:  5'- -cCCGAGgggccaCCUCGACAGCCaGGAaCCc -3'
miRNA:   3'- uuGGCUCaa----GGAGCUGUCGGaCCU-GG- -5'
1497 3' -56 NC_001335.1 + 13283 0.77 0.161057
Target:  5'- uGGCCGGGaugCCgguauUCGACGGCCUGGuCCg -3'
miRNA:   3'- -UUGGCUCaa-GG-----AGCUGUCGGACCuGG- -5'
1497 3' -56 NC_001335.1 + 46447 0.77 0.144245
Target:  5'- cGGCgGucaggcGUUCCUUGACGGCCUGGGCg -3'
miRNA:   3'- -UUGgCu-----CAAGGAGCUGUCGGACCUGg -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.