miRNA display CGI


Results 1 - 20 of 37 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
1493 3' -55.1 NC_001335.1 + 46266 0.66 0.704903
Target:  5'- uGCUUGGCGGUGGuucuaGGCAaccugccugggaucaUCGCCGagGCa -3'
miRNA:   3'- cCGAGUCGCUACU-----UCGU---------------AGCGGCg-UG- -5'
1493 3' -55.1 NC_001335.1 + 17781 0.66 0.70053
Target:  5'- -cCUCGGCGGUGAA-C-UgGCCGUACu -3'
miRNA:   3'- ccGAGUCGCUACUUcGuAgCGGCGUG- -5'
1493 3' -55.1 NC_001335.1 + 34292 0.66 0.70053
Target:  5'- cGCUCAGUGuguuGUGGccGGCGgugugCGCCGguCg -3'
miRNA:   3'- cCGAGUCGC----UACU--UCGUa----GCGGCguG- -5'
1493 3' -55.1 NC_001335.1 + 39101 0.66 0.70053
Target:  5'- -uCUCGGUGAUGAGuagcGCAUCGUgGCc- -3'
miRNA:   3'- ccGAGUCGCUACUU----CGUAGCGgCGug -5'
1493 3' -55.1 NC_001335.1 + 1415 0.66 0.689551
Target:  5'- gGGCgUCgauGGCGAuUGGuuGUAuUCGCCGCGCu -3'
miRNA:   3'- -CCG-AG---UCGCU-ACUu-CGU-AGCGGCGUG- -5'
1493 3' -55.1 NC_001335.1 + 49398 0.66 0.689551
Target:  5'- cGCUgCGGCGgcGAGGU-UUGCCGCuACu -3'
miRNA:   3'- cCGA-GUCGCuaCUUCGuAGCGGCG-UG- -5'
1493 3' -55.1 NC_001335.1 + 27673 0.66 0.678514
Target:  5'- aGCcgCAGCaGGUGcAGCA--GCCGCACu -3'
miRNA:   3'- cCGa-GUCG-CUACuUCGUagCGGCGUG- -5'
1493 3' -55.1 NC_001335.1 + 46169 0.66 0.67187
Target:  5'- -cCUCGGCGAUGAucccaGGCAggUUGCCuagaaccaccgccaaGCACa -3'
miRNA:   3'- ccGAGUCGCUACU-----UCGU--AGCGG---------------CGUG- -5'
1493 3' -55.1 NC_001335.1 + 26539 0.66 0.667433
Target:  5'- -cCUCAGUGGUacgcGGGC-UCGCCGUACc -3'
miRNA:   3'- ccGAGUCGCUAc---UUCGuAGCGGCGUG- -5'
1493 3' -55.1 NC_001335.1 + 27164 0.66 0.667433
Target:  5'- aGGCUCAG-GGUGGcGGCAagGCCGa-- -3'
miRNA:   3'- -CCGAGUCgCUACU-UCGUagCGGCgug -5'
1493 3' -55.1 NC_001335.1 + 11309 0.66 0.656318
Target:  5'- cGUUCAGCGG-GAucGGCGgcuuacCGCCGCGa -3'
miRNA:   3'- cCGAGUCGCUaCU--UCGUa-----GCGGCGUg -5'
1493 3' -55.1 NC_001335.1 + 46422 0.67 0.645179
Target:  5'- uGGCUCuGCGccaGgcGCAUCcUCGCACc -3'
miRNA:   3'- -CCGAGuCGCua-CuuCGUAGcGGCGUG- -5'
1493 3' -55.1 NC_001335.1 + 22221 0.67 0.632913
Target:  5'- aGGaaCAGCGGgccgucuUGGAGCGcguucaugaUCGCCuGCACa -3'
miRNA:   3'- -CCgaGUCGCU-------ACUUCGU---------AGCGG-CGUG- -5'
1493 3' -55.1 NC_001335.1 + 29178 0.67 0.632913
Target:  5'- aGGuCUaCGGCGGUGggGCGaaggcucUCGCUGagGCa -3'
miRNA:   3'- -CC-GA-GUCGCUACuuCGU-------AGCGGCg-UG- -5'
1493 3' -55.1 NC_001335.1 + 6503 0.67 0.627337
Target:  5'- aGCUgGGCGAUGAcggAGUccuuaccuccgaugaAUCGCCuaGCGCu -3'
miRNA:   3'- cCGAgUCGCUACU---UCG---------------UAGCGG--CGUG- -5'
1493 3' -55.1 NC_001335.1 + 29071 0.67 0.622876
Target:  5'- cGGCUgagcaagaagcUGGCGAUgGAAGC-UgGCCGCAa -3'
miRNA:   3'- -CCGA-----------GUCGCUA-CUUCGuAgCGGCGUg -5'
1493 3' -55.1 NC_001335.1 + 31875 0.67 0.611732
Target:  5'- cGGCU-GGCuGAccGggGC-UUGCCGCGCa -3'
miRNA:   3'- -CCGAgUCG-CUa-CuuCGuAGCGGCGUG- -5'
1493 3' -55.1 NC_001335.1 + 24257 0.67 0.611732
Target:  5'- cGcCUCAGCGAU--AGCcUCGUCGCGg -3'
miRNA:   3'- cC-GAGUCGCUAcuUCGuAGCGGCGUg -5'
1493 3' -55.1 NC_001335.1 + 26793 0.68 0.589508
Target:  5'- gGGUUCGGgagacaacCGAUGAAGCA-CGgaggaCCGCGCu -3'
miRNA:   3'- -CCGAGUC--------GCUACUUCGUaGC-----GGCGUG- -5'
1493 3' -55.1 NC_001335.1 + 38013 0.68 0.589508
Target:  5'- aGCUCGGCGGUGAucGUGUCGaguucucccUCGCAg -3'
miRNA:   3'- cCGAGUCGCUACUu-CGUAGC---------GGCGUg -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.