miRNA display CGI


Results 1 - 20 of 50 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
29940 3' -56.6 NC_006273.1 + 117816 0.66 0.942838
Target:  5'- gAUGAACCaccgUCCGgaUGgGAGCguuaCGACGGUGg -3'
miRNA:   3'- -UGUUUGG----AGGC--ACgCUCG----GCUGCCAC- -5'
29940 3' -56.6 NC_006273.1 + 135153 0.67 0.918099
Target:  5'- ---cGCgUCCGUGUucGAGCaccuGACGGUGg -3'
miRNA:   3'- uguuUGgAGGCACG--CUCGg---CUGCCAC- -5'
29940 3' -56.6 NC_006273.1 + 78322 0.67 0.922962
Target:  5'- uCGGAUCUUCGgcuaccucguaguUGCacacGGCCGACGGUGg -3'
miRNA:   3'- uGUUUGGAGGC-------------ACGc---UCGGCUGCCAC- -5'
29940 3' -56.6 NC_006273.1 + 193112 0.67 0.923491
Target:  5'- cGCGggUCUCCG-GCGGuaacgaCGGCGGUGu -3'
miRNA:   3'- -UGUuuGGAGGCaCGCUcg----GCUGCCAC- -5'
29940 3' -56.6 NC_006273.1 + 229802 0.67 0.923491
Target:  5'- aGCAcGCUUCCGa--GGGCUGGCGGUu -3'
miRNA:   3'- -UGUuUGGAGGCacgCUCGGCUGCCAc -5'
29940 3' -56.6 NC_006273.1 + 130036 0.67 0.928155
Target:  5'- cCGAGCCUCUuuUGCGAcuguccuGgCGGCGGUGg -3'
miRNA:   3'- uGUUUGGAGGc-ACGCU-------CgGCUGCCAC- -5'
29940 3' -56.6 NC_006273.1 + 54523 0.67 0.928662
Target:  5'- uGCAGACgUUCaUGuCGAcguaGCCGGCGGUGc -3'
miRNA:   3'- -UGUUUGgAGGcAC-GCU----CGGCUGCCAC- -5'
29940 3' -56.6 NC_006273.1 + 103550 0.66 0.938334
Target:  5'- gGCcAGCCccaggCCGUGCGGGCUGGucgcCGaGUGg -3'
miRNA:   3'- -UGuUUGGa----GGCACGCUCGGCU----GC-CAC- -5'
29940 3' -56.6 NC_006273.1 + 167417 0.66 0.942397
Target:  5'- gACAGACUUCCacagugGCGGGCgcgcucuCGGCGGUc -3'
miRNA:   3'- -UGUUUGGAGGca----CGCUCG-------GCUGCCAc -5'
29940 3' -56.6 NC_006273.1 + 196627 0.68 0.900594
Target:  5'- -gGAGCUgcgCCGgcgGUGGGCCggcacGACGGUGg -3'
miRNA:   3'- ugUUUGGa--GGCa--CGCUCGG-----CUGCCAC- -5'
29940 3' -56.6 NC_006273.1 + 162181 0.68 0.894322
Target:  5'- gGCGAAuCCUCCG-GCGGa--GGCGGUGg -3'
miRNA:   3'- -UGUUU-GGAGGCaCGCUcggCUGCCAC- -5'
29940 3' -56.6 NC_006273.1 + 187146 0.68 0.881143
Target:  5'- gGCucGCCUCCGUGCGGacGCCGuuucGUGc -3'
miRNA:   3'- -UGuuUGGAGGCACGCU--CGGCugc-CAC- -5'
29940 3' -56.6 NC_006273.1 + 46225 0.75 0.507446
Target:  5'- cCAGACCUCUGUGCGAGUCGcCGcGa- -3'
miRNA:   3'- uGUUUGGAGGCACGCUCGGCuGC-Cac -5'
29940 3' -56.6 NC_006273.1 + 31224 0.74 0.594153
Target:  5'- uACGGACCaCCGUGCGGGgCGAcaCGGUa -3'
miRNA:   3'- -UGUUUGGaGGCACGCUCgGCU--GCCAc -5'
29940 3' -56.6 NC_006273.1 + 161110 0.71 0.759154
Target:  5'- gACGAcuaCUCCGUGUG-GCuCGACGGUa -3'
miRNA:   3'- -UGUUug-GAGGCACGCuCG-GCUGCCAc -5'
29940 3' -56.6 NC_006273.1 + 116935 0.71 0.768308
Target:  5'- cCAGACCUCaCG-GCG-GCCGACcGUGa -3'
miRNA:   3'- uGUUUGGAG-GCaCGCuCGGCUGcCAC- -5'
29940 3' -56.6 NC_006273.1 + 61747 0.69 0.820583
Target:  5'- cGCGAGCg-CCGUGCGcGCCuucGugGGUGc -3'
miRNA:   3'- -UGUUUGgaGGCACGCuCGG---CugCCAC- -5'
29940 3' -56.6 NC_006273.1 + 158686 0.69 0.850063
Target:  5'- cACGGACCagCCGUgaggcagggcacacGCGGGUCGGCGGc- -3'
miRNA:   3'- -UGUUUGGa-GGCA--------------CGCUCGGCUGCCac -5'
29940 3' -56.6 NC_006273.1 + 196665 0.68 0.867139
Target:  5'- uACAGACg-CCGggaagGCGAcugcaGCCGAUGGUGc -3'
miRNA:   3'- -UGUUUGgaGGCa----CGCU-----CGGCUGCCAC- -5'
29940 3' -56.6 NC_006273.1 + 77147 0.68 0.867139
Target:  5'- gGCGAACCgCCGUcGCcGGCCGACGc-- -3'
miRNA:   3'- -UGUUUGGaGGCA-CGcUCGGCUGCcac -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.