miRNA display CGI


Results 1 - 20 of 53 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
5983 5' -57.2 NC_001806.1 + 77498 0.66 0.840931
Target:  5'- -cGCCgccGGGGCGaggcGUACCUGCGagugAGCg -3'
miRNA:   3'- cuUGGa--CCCCGUa---CGUGGACGCg---UUG- -5'
5983 5' -57.2 NC_001806.1 + 89101 0.66 0.840931
Target:  5'- --uCCgggGGGGCAUccucguccaGCACCcGCGgGGCg -3'
miRNA:   3'- cuuGGa--CCCCGUA---------CGUGGaCGCgUUG- -5'
5983 5' -57.2 NC_001806.1 + 127212 0.66 0.832605
Target:  5'- cGGGCCccGGGGagacaGCGCCUGCGUu-- -3'
miRNA:   3'- -CUUGGa-CCCCgua--CGUGGACGCGuug -5'
5983 5' -57.2 NC_001806.1 + 119026 0.66 0.832605
Target:  5'- -cGCCgUGGcGGCGcUGCGCCuUGCGUggGGCu -3'
miRNA:   3'- cuUGG-ACC-CCGU-ACGUGG-ACGCG--UUG- -5'
5983 5' -57.2 NC_001806.1 + 99806 0.66 0.832605
Target:  5'- -cACCUGaGGGCgauaGUGCGCCaccgGCGUGuACa -3'
miRNA:   3'- cuUGGAC-CCCG----UACGUGGa---CGCGU-UG- -5'
5983 5' -57.2 NC_001806.1 + 65469 0.66 0.832605
Target:  5'- cGGGuCCUGGGG---GCGCCcGCGCAccACg -3'
miRNA:   3'- -CUU-GGACCCCguaCGUGGaCGCGU--UG- -5'
5983 5' -57.2 NC_001806.1 + 83488 0.66 0.832605
Target:  5'- -uGCCUGGGG---GCGCCccacUGCGCcGCu -3'
miRNA:   3'- cuUGGACCCCguaCGUGG----ACGCGuUG- -5'
5983 5' -57.2 NC_001806.1 + 78668 0.66 0.832605
Target:  5'- uGGugCUGGcGGCAgUGCuCCUGgGCGc- -3'
miRNA:   3'- -CUugGACC-CCGU-ACGuGGACgCGUug -5'
5983 5' -57.2 NC_001806.1 + 49168 0.66 0.83007
Target:  5'- cGAGCCagcgggcgauggggUGGGGUucaugggGUACCUGCGUg-- -3'
miRNA:   3'- -CUUGG--------------ACCCCGua-----CGUGGACGCGuug -5'
5983 5' -57.2 NC_001806.1 + 119483 0.66 0.824092
Target:  5'- cGGACC--GGGCGUGCGgCCUGUGgCGuuGCa -3'
miRNA:   3'- -CUUGGacCCCGUACGU-GGACGC-GU--UG- -5'
5983 5' -57.2 NC_001806.1 + 13134 0.66 0.824092
Target:  5'- aGGCCUGGGGgGagagGCagGCUgacggggggaUGCGCAGCg -3'
miRNA:   3'- cUUGGACCCCgUa---CG--UGG----------ACGCGUUG- -5'
5983 5' -57.2 NC_001806.1 + 46106 0.66 0.824092
Target:  5'- cGGCCcGGGGCcUGCGCggGCGCc-- -3'
miRNA:   3'- cUUGGaCCCCGuACGUGgaCGCGuug -5'
5983 5' -57.2 NC_001806.1 + 71818 0.66 0.824092
Target:  5'- gGAGCCgggGGGGUcgGUAUC-GUGCAuGCg -3'
miRNA:   3'- -CUUGGa--CCCCGuaCGUGGaCGCGU-UG- -5'
5983 5' -57.2 NC_001806.1 + 51240 0.66 0.824092
Target:  5'- cGACCgaacGGGCGUcaccaugcaGCGCCggacGCGCGGCg -3'
miRNA:   3'- cUUGGac--CCCGUA---------CGUGGa---CGCGUUG- -5'
5983 5' -57.2 NC_001806.1 + 27250 0.66 0.815401
Target:  5'- cGGGCCgccucgGGGGCGggacugGCcaaucggcggccGCCaGCGCGGCg -3'
miRNA:   3'- -CUUGGa-----CCCCGUa-----CG------------UGGaCGCGUUG- -5'
5983 5' -57.2 NC_001806.1 + 132333 0.66 0.805643
Target:  5'- gGGACCUGGucgaGGUGUGCgagguggGCCUGCGgCcACg -3'
miRNA:   3'- -CUUGGACC----CCGUACG-------UGGACGC-GuUG- -5'
5983 5' -57.2 NC_001806.1 + 19486 0.67 0.788338
Target:  5'- uGAGag-GGGGCGggaaggGCGCUUGCGCuuGCg -3'
miRNA:   3'- -CUUggaCCCCGUa-----CGUGGACGCGu-UG- -5'
5983 5' -57.2 NC_001806.1 + 4453 0.67 0.788338
Target:  5'- -cGCCcgGGGGCugccgGCGCC-GCGCucGACg -3'
miRNA:   3'- cuUGGa-CCCCGua---CGUGGaCGCG--UUG- -5'
5983 5' -57.2 NC_001806.1 + 95901 0.67 0.788338
Target:  5'- aGAACgUGGGGCuccugccGCACCUGaaggaGgAGCu -3'
miRNA:   3'- -CUUGgACCCCGua-----CGUGGACg----CgUUG- -5'
5983 5' -57.2 NC_001806.1 + 62838 0.67 0.769563
Target:  5'- -cGCCgaGGcGGCGguggGCAUCaGCGCGACa -3'
miRNA:   3'- cuUGGa-CC-CCGUa---CGUGGaCGCGUUG- -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.