miRNA display CGI


Results 1 - 20 of 56 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
16227 3' -56.3 NC_004065.1 + 37876 0.66 0.946134
Target:  5'- cGGUGAUCGGCacGAUgUUCCGcACCu- -3'
miRNA:   3'- -CCACUAGCCGc-CUGgAGGGUuUGGca -5'
16227 3' -56.3 NC_004065.1 + 176228 0.67 0.932526
Target:  5'- cGGcucUCGGCGGACCgCgCAGACCu- -3'
miRNA:   3'- -CCacuAGCCGCCUGGaGgGUUUGGca -5'
16227 3' -56.3 NC_004065.1 + 62871 0.67 0.936816
Target:  5'- cGGUG--UGGCGGucugcugGCCUCCCugcCCGUc -3'
miRNA:   3'- -CCACuaGCCGCC-------UGGAGGGuuuGGCA- -5'
16227 3' -56.3 NC_004065.1 + 184139 0.67 0.937282
Target:  5'- gGGUGAaCGGa--GCCcCCCAGGCCGg -3'
miRNA:   3'- -CCACUaGCCgccUGGaGGGUUUGGCa -5'
16227 3' -56.3 NC_004065.1 + 223096 0.67 0.937282
Target:  5'- --cGA-CGGCGGACg-CCgAGGCCGUg -3'
miRNA:   3'- ccaCUaGCCGCCUGgaGGgUUUGGCA- -5'
16227 3' -56.3 NC_004065.1 + 202140 0.67 0.937282
Target:  5'- cGGcagGAUCGGaCGGAggUCCC-GGCCGUc -3'
miRNA:   3'- -CCa--CUAGCC-GCCUggAGGGuUUGGCA- -5'
16227 3' -56.3 NC_004065.1 + 189113 0.67 0.941817
Target:  5'- cGGUGAUUGaCGGucuccACCguggCCCGGACCa- -3'
miRNA:   3'- -CCACUAGCcGCC-----UGGa---GGGUUUGGca -5'
16227 3' -56.3 NC_004065.1 + 228393 0.66 0.944862
Target:  5'- cGGUG-UCGGuCGGACgacauugcagCUCCCAGcgacgaagguugugGCCGa -3'
miRNA:   3'- -CCACuAGCC-GCCUG----------GAGGGUU--------------UGGCa -5'
16227 3' -56.3 NC_004065.1 + 31380 0.66 0.946134
Target:  5'- -cUGAUCGGCcggcGGAuCCUCUC-GGCCGg -3'
miRNA:   3'- ccACUAGCCG----CCU-GGAGGGuUUGGCa -5'
16227 3' -56.3 NC_004065.1 + 74603 0.67 0.932526
Target:  5'- cGGUGG-CGGUGGcgGCCgaguUCCCgGAACCGc -3'
miRNA:   3'- -CCACUaGCCGCC--UGG----AGGG-UUUGGCa -5'
16227 3' -56.3 NC_004065.1 + 120388 0.68 0.916936
Target:  5'- cGGcgGAUCgGGCGGACgcugCUCCUucGCCGc -3'
miRNA:   3'- -CCa-CUAG-CCGCCUG----GAGGGuuUGGCa -5'
16227 3' -56.3 NC_004065.1 + 55874 0.68 0.905443
Target:  5'- --cGAUCGGCGucGAUCggcgUCCAGGCCGa -3'
miRNA:   3'- ccaCUAGCCGC--CUGGa---GGGUUUGGCa -5'
16227 3' -56.3 NC_004065.1 + 116943 0.77 0.444001
Target:  5'- cGGUGGUCuGGUGGGCCUCCUgcucgAAAuCCGUu -3'
miRNA:   3'- -CCACUAG-CCGCCUGGAGGG-----UUU-GGCA- -5'
16227 3' -56.3 NC_004065.1 + 44543 0.74 0.60343
Target:  5'- cGGUGG-CGGCGcuGCCUCCCGAcCCGc -3'
miRNA:   3'- -CCACUaGCCGCc-UGGAGGGUUuGGCa -5'
16227 3' -56.3 NC_004065.1 + 114939 0.72 0.70136
Target:  5'- cGGUGAucaucaucagUCGGCGccgccGGCCUCCaGAACCGa -3'
miRNA:   3'- -CCACU----------AGCCGC-----CUGGAGGgUUUGGCa -5'
16227 3' -56.3 NC_004065.1 + 120559 0.72 0.710985
Target:  5'- cGGcGGUCGGCgcgagcgggcgGGACCUCCgGcGCCGg -3'
miRNA:   3'- -CCaCUAGCCG-----------CCUGGAGGgUuUGGCa -5'
16227 3' -56.3 NC_004065.1 + 103750 0.71 0.767146
Target:  5'- cGGUucGcgCGGCgGGGCCUCC-GGACCGUc -3'
miRNA:   3'- -CCA--CuaGCCG-CCUGGAGGgUUUGGCA- -5'
16227 3' -56.3 NC_004065.1 + 174471 0.7 0.810974
Target:  5'- cGGUGAucUCGGCGGACCuuugacUCUCGGucCUGUu -3'
miRNA:   3'- -CCACU--AGCCGCCUGG------AGGGUUu-GGCA- -5'
16227 3' -56.3 NC_004065.1 + 110739 0.69 0.872968
Target:  5'- --gGAUUGGCGGACgUCCCcuucuggcGCCGc -3'
miRNA:   3'- ccaCUAGCCGCCUGgAGGGuu------UGGCa -5'
16227 3' -56.3 NC_004065.1 + 194400 0.69 0.872968
Target:  5'- uGUGGggacagagCGGCGGGCgUUCCAGACgGa -3'
miRNA:   3'- cCACUa-------GCCGCCUGgAGGGUUUGgCa -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.