miRNA display CGI


Results 1 - 20 of 34 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
18768 3' -55.6 NC_004683.1 + 23039 0.66 0.725183
Target:  5'- -uCCCGUgggucggucucGGUGUcGGCCUGcUCGGCg -3'
miRNA:   3'- guGGGUAa----------CCGCAuUCGGACaGGCCG- -5'
18768 3' -55.6 NC_004683.1 + 12226 0.66 0.725183
Target:  5'- aCGCCCGccggGGCGgGAGC--GcCCGGCg -3'
miRNA:   3'- -GUGGGUaa--CCGCaUUCGgaCaGGCCG- -5'
18768 3' -55.6 NC_004683.1 + 16217 0.66 0.721998
Target:  5'- aCGCCCAgucgUGGgugucgauguaguaCGgcAGCCgcacgCCGGCg -3'
miRNA:   3'- -GUGGGUa---ACC--------------GCauUCGGaca--GGCCG- -5'
18768 3' -55.6 NC_004683.1 + 52315 0.66 0.714534
Target:  5'- gGCCCA--GGCGcucaaggacGGCCgauUCCGGCg -3'
miRNA:   3'- gUGGGUaaCCGCau-------UCGGac-AGGCCG- -5'
18768 3' -55.6 NC_004683.1 + 41395 0.66 0.703805
Target:  5'- gUACCCGUcggcUGGCGgcguGGCUgGUgUGGCc -3'
miRNA:   3'- -GUGGGUA----ACCGCau--UCGGaCAgGCCG- -5'
18768 3' -55.6 NC_004683.1 + 13462 0.66 0.703805
Target:  5'- cCGCgCAgggUGGCGgcGGCUuccagggcgUGUCgGGCc -3'
miRNA:   3'- -GUGgGUa--ACCGCauUCGG---------ACAGgCCG- -5'
18768 3' -55.6 NC_004683.1 + 54407 0.66 0.699493
Target:  5'- -uCCUGUUGGCG--GGCCUGgucgacgugcucaCCGGUa -3'
miRNA:   3'- guGGGUAACCGCauUCGGACa------------GGCCG- -5'
18768 3' -55.6 NC_004683.1 + 13739 0.66 0.693005
Target:  5'- uGCCCAgUGGCG--AGCCcga-CGGCa -3'
miRNA:   3'- gUGGGUaACCGCauUCGGacagGCCG- -5'
18768 3' -55.6 NC_004683.1 + 940 0.66 0.693005
Target:  5'- aCACgCCAUUGGUG-GGGCC-GUCCuccagccgcuuGGCc -3'
miRNA:   3'- -GUG-GGUAACCGCaUUCGGaCAGG-----------CCG- -5'
18768 3' -55.6 NC_004683.1 + 13818 0.66 0.693005
Target:  5'- uGCCCGgcGGUGUuuggcagcgcAGGCCgcgcaCCGGCg -3'
miRNA:   3'- gUGGGUaaCCGCA----------UUCGGaca--GGCCG- -5'
18768 3' -55.6 NC_004683.1 + 40206 0.66 0.682147
Target:  5'- uGCagAUUGGCGaUGgucgcGGCCgcGUCCGGCu -3'
miRNA:   3'- gUGggUAACCGC-AU-----UCGGa-CAGGCCG- -5'
18768 3' -55.6 NC_004683.1 + 53851 0.66 0.682147
Target:  5'- uCACCCGUgaugccguUGGCG--AGCCgugcaGUCCaGCu -3'
miRNA:   3'- -GUGGGUA--------ACCGCauUCGGa----CAGGcCG- -5'
18768 3' -55.6 NC_004683.1 + 23908 0.67 0.660299
Target:  5'- gCGCCgCGUaGGCGUGgcGGCCga--CGGCa -3'
miRNA:   3'- -GUGG-GUAaCCGCAU--UCGGacagGCCG- -5'
18768 3' -55.6 NC_004683.1 + 31993 0.67 0.64933
Target:  5'- aACCCGcgGGCGgcugAGGCg-GUgCGGCu -3'
miRNA:   3'- gUGGGUaaCCGCa---UUCGgaCAgGCCG- -5'
18768 3' -55.6 NC_004683.1 + 966 0.67 0.61637
Target:  5'- gCACCaacagUGGUGgccguGGCUUGaCCGGCa -3'
miRNA:   3'- -GUGGgua--ACCGCau---UCGGACaGGCCG- -5'
18768 3' -55.6 NC_004683.1 + 40316 0.67 0.605398
Target:  5'- gCGCCUgcagcucGGCGcGGGCCUGcUCGGCg -3'
miRNA:   3'- -GUGGGuaa----CCGCaUUCGGACaGGCCG- -5'
18768 3' -55.6 NC_004683.1 + 2810 0.68 0.572655
Target:  5'- cUACaCCGagGGUGgucGCCaGUCCGGCa -3'
miRNA:   3'- -GUG-GGUaaCCGCauuCGGaCAGGCCG- -5'
18768 3' -55.6 NC_004683.1 + 2126 0.68 0.551055
Target:  5'- uCGCCCugguggUGGCGggcguGGCCgugCUGGCg -3'
miRNA:   3'- -GUGGGua----ACCGCau---UCGGacaGGCCG- -5'
18768 3' -55.6 NC_004683.1 + 13989 0.68 0.551055
Target:  5'- gCACCCGUUGGUGac-GCUgugGUCCuacgacggGGCg -3'
miRNA:   3'- -GUGGGUAACCGCauuCGGa--CAGG--------CCG- -5'
18768 3' -55.6 NC_004683.1 + 13865 0.69 0.540347
Target:  5'- gGCCCGgcugacugGGC-UGAGCCggguucggGUUCGGCg -3'
miRNA:   3'- gUGGGUaa------CCGcAUUCGGa-------CAGGCCG- -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.