miRNA display CGI


Results 21 - 40 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 + 31380 0.66 0.946134
Target:  5'- -cUGAUCGGCcggcGGAuCCUCUC-GGCCGg -3'
miRNA:   3'- ccACUAGCCG----CCU-GGAGGGuUUGGCa -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 + 189113 0.67 0.941817
Target:  5'- cGGUGAUUGaCGGucuccACCguggCCCGGACCa- -3'
miRNA:   3'- -CCACUAGCcGCC-----UGGa---GGGUUUGGca -5'
16227 3' -56.3 NC_004065.1 + 151624 0.67 0.941817
Target:  5'- --cGGUCGGCGG-CgUCCCGuuCCu- -3'
miRNA:   3'- ccaCUAGCCGCCuGgAGGGUuuGGca -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 + 62871 0.67 0.936816
Target:  5'- cGGUG--UGGCGGucugcugGCCUCCCugcCCGUc -3'
miRNA:   3'- -CCACuaGCCGCC-------UGGAGGGuuuGGCA- -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 + 74603 0.67 0.932526
Target:  5'- cGGUGG-CGGUGGcgGCCgaguUCCCgGAACCGc -3'
miRNA:   3'- -CCACUaGCCGCC--UGG----AGGG-UUUGGCa -5'
16227 3' -56.3 NC_004065.1 + 198913 0.67 0.922354
Target:  5'- cGGUGA-CGGUGGuGCCUgCCCGcuCCa- -3'
miRNA:   3'- -CCACUaGCCGCC-UGGA-GGGUuuGGca -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 + 35562 0.68 0.911298
Target:  5'- cGUGAgCGGCGGcgccGCCgugCCCAaccgcuucGACCGa -3'
miRNA:   3'- cCACUaGCCGCC----UGGa--GGGU--------UUGGCa -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 + 212964 0.68 0.893082
Target:  5'- --aGAUCGGUGGACCUCUCuggugggauGAUUGa -3'
miRNA:   3'- ccaCUAGCCGCCUGGAGGGu--------UUGGCa -5'
16227 3' -56.3 NC_004065.1 + 56467 0.68 0.893082
Target:  5'- cGUGAUCGaCcGACCUCCCc-GCCGa -3'
miRNA:   3'- cCACUAGCcGcCUGGAGGGuuUGGCa -5'
16227 3' -56.3 NC_004065.1 + 194400 0.69 0.872968
Target:  5'- uGUGGggacagagCGGCGGGCgUUCCAGACgGa -3'
miRNA:   3'- cCACUa-------GCCGCCUGgAGGGUUUGgCa -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 + 4414 0.69 0.872968
Target:  5'- cGGUGGccaCGGCGGGCCUgacgcugaccCUCGGGCCu- -3'
miRNA:   3'- -CCACUa--GCCGCCUGGA----------GGGUUUGGca -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.