miRNA display CGI


Results 1 - 20 of 31 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
13204 3' -61.7 NC_003401.1 + 15746 0.66 0.659293
Target:  5'- aGGCCGCGgCCaGGGAgaacuuuauccuCcCGGUUCCa -3'
miRNA:   3'- cCCGGCGCgGGaCCUU------------GcGCCAAGGa -5'
13204 3' -61.7 NC_003401.1 + 11212 0.66 0.649422
Target:  5'- gGGGCCGggaaagagauCGCUCUGGcGCGUcagGGggCCg -3'
miRNA:   3'- -CCCGGC----------GCGGGACCuUGCG---CCaaGGa -5'
13204 3' -61.7 NC_003401.1 + 132667 0.66 0.639538
Target:  5'- gGGGCCgGgGCCC-GGGGCgccucgGCGGggCCc -3'
miRNA:   3'- -CCCGG-CgCGGGaCCUUG------CGCCaaGGa -5'
13204 3' -61.7 NC_003401.1 + 132611 0.66 0.639538
Target:  5'- cGGCCGgGCCCggcGGAGCggcacccggggGCGGccCCg -3'
miRNA:   3'- cCCGGCgCGGGa--CCUUG-----------CGCCaaGGa -5'
13204 3' -61.7 NC_003401.1 + 11742 0.66 0.629649
Target:  5'- uGGUCGCGCCCuUGGGG-GUGGUgacguuuucgCCa -3'
miRNA:   3'- cCCGGCGCGGG-ACCUUgCGCCAa---------GGa -5'
13204 3' -61.7 NC_003401.1 + 118104 0.66 0.619761
Target:  5'- gGGGCCGCgcgccaccauggGCCCcagauuUGGGcCGCGGggUCa -3'
miRNA:   3'- -CCCGGCG------------CGGG------ACCUuGCGCCaaGGa -5'
13204 3' -61.7 NC_003401.1 + 109515 0.66 0.616797
Target:  5'- cGGGCCGCuugccuaaccugGCugaagacgaagcugCCUGucauGGGCGCGGUUCUUa -3'
miRNA:   3'- -CCCGGCG------------CG--------------GGAC----CUUGCGCCAAGGA- -5'
13204 3' -61.7 NC_003401.1 + 16316 0.66 0.609883
Target:  5'- cGGUCGCgaggugaccGCCCgucacGGcGCGCGGUUUCg -3'
miRNA:   3'- cCCGGCG---------CGGGa----CCuUGCGCCAAGGa -5'
13204 3' -61.7 NC_003401.1 + 105992 0.67 0.60002
Target:  5'- -cGCCGCGCgCCUGGccaaggcgcuugGGCGUGGccgCCa -3'
miRNA:   3'- ccCGGCGCG-GGACC------------UUGCGCCaa-GGa -5'
13204 3' -61.7 NC_003401.1 + 127706 0.67 0.60002
Target:  5'- cGGCCaccugggaGCCCUGGucuCGCGGggcggCCUg -3'
miRNA:   3'- cCCGGcg------CGGGACCuu-GCGCCaa---GGA- -5'
13204 3' -61.7 NC_003401.1 + 23785 0.67 0.599034
Target:  5'- aGGGCCGCGCCgguuggcGGAuaauaugaaaccgGCGCGG--CCa -3'
miRNA:   3'- -CCCGGCGCGGga-----CCU-------------UGCGCCaaGGa -5'
13204 3' -61.7 NC_003401.1 + 132242 0.67 0.597065
Target:  5'- cGGGCCgcggccgccaucuuGCGCCC-GGGGCGaGGgUCCc -3'
miRNA:   3'- -CCCGG--------------CGCGGGaCCUUGCgCCaAGGa -5'
13204 3' -61.7 NC_003401.1 + 50035 0.67 0.580366
Target:  5'- cGGCCGcCGUCCgGGGcucgcguacACGaUGGUUCCg -3'
miRNA:   3'- cCCGGC-GCGGGaCCU---------UGC-GCCAAGGa -5'
13204 3' -61.7 NC_003401.1 + 19634 0.67 0.560851
Target:  5'- cGGCCaccgaucgcGCGCCCUGGAGCugccggGCGGggUg- -3'
miRNA:   3'- cCCGG---------CGCGGGACCUUG------CGCCaaGga -5'
13204 3' -61.7 NC_003401.1 + 107631 0.67 0.55116
Target:  5'- cGGGuCCGcCGCCaccGGGCGCGGggCCc -3'
miRNA:   3'- -CCC-GGC-GCGGgacCUUGCGCCaaGGa -5'
13204 3' -61.7 NC_003401.1 + 119630 0.67 0.55116
Target:  5'- cGGGCUGUGCCCcucaacUGGAgaACcCGGUauUCCc -3'
miRNA:   3'- -CCCGGCGCGGG------ACCU--UGcGCCA--AGGa -5'
13204 3' -61.7 NC_003401.1 + 122574 0.68 0.530983
Target:  5'- cGGCCGCGCgCUgcgcggcGGAAcagacuuucCGCGGUUCg- -3'
miRNA:   3'- cCCGGCGCGgGA-------CCUU---------GCGCCAAGga -5'
13204 3' -61.7 NC_003401.1 + 40439 0.68 0.503581
Target:  5'- uGGGCUGCGCgUUGGGACGg---UCCa -3'
miRNA:   3'- -CCCGGCGCGgGACCUUGCgccaAGGa -5'
13204 3' -61.7 NC_003401.1 + 18304 0.69 0.475899
Target:  5'- -cGCCGCGCCCUGcccCGUGGUgcgauuaagcUCCg -3'
miRNA:   3'- ccCGGCGCGGGACcuuGCGCCA----------AGGa -5'
13204 3' -61.7 NC_003401.1 + 74896 0.69 0.46684
Target:  5'- uGGCCGCGCCUgguucguuuUGGAcguguUGCGGguuuagUCCg -3'
miRNA:   3'- cCCGGCGCGGG---------ACCUu----GCGCCa-----AGGa -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.