miRNA display CGI


Results 1 - 20 of 52 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
27407 3' -53.2 NC_005869.1 + 1439 0.65 0.709906
Target:  5'- aCCCGGcc-GCCCuguuccaagggggcGGGGAG-UGCcuAGCCg -3'
miRNA:   3'- -GGGUCuuuCGGG--------------UCCUUCaACG--UCGG- -5'
27407 3' -53.2 NC_005869.1 + 19390 0.66 0.701966
Target:  5'- gUCCGGGGAGaCCAgcagcgucuGGGAGgcGguGCCc -3'
miRNA:   3'- -GGGUCUUUCgGGU---------CCUUCaaCguCGG- -5'
27407 3' -53.2 NC_005869.1 + 12343 0.66 0.701966
Target:  5'- gCgUAGAGgagguucuGGCCCAGGucGGUgagGguGCCc -3'
miRNA:   3'- -GgGUCUU--------UCGGGUCCu-UCAa--CguCGG- -5'
27407 3' -53.2 NC_005869.1 + 9888 0.66 0.701966
Target:  5'- uCCCGGucGGCguCCAGGuGGGUgcgaccGUAGCCc -3'
miRNA:   3'- -GGGUCuuUCG--GGUCC-UUCAa-----CGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 2158 0.66 0.690561
Target:  5'- -gCAGuacAGCCUguguGGGggGUUGgAGCUg -3'
miRNA:   3'- ggGUCuu-UCGGG----UCCuuCAACgUCGG- -5'
27407 3' -53.2 NC_005869.1 + 11801 0.66 0.690561
Target:  5'- cCCUGGAcGAGCCUuGGGAGcaggcucUGCGGCg -3'
miRNA:   3'- -GGGUCU-UUCGGGuCCUUCa------ACGUCGg -5'
27407 3' -53.2 NC_005869.1 + 12943 0.66 0.690561
Target:  5'- uCCCGGAgcAGGaCgAGGggGaggaGCGGCCc -3'
miRNA:   3'- -GGGUCU--UUCgGgUCCuuCaa--CGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 26349 0.66 0.689416
Target:  5'- aCCCAGAccucgccGAGCUggcgCAGGAGcGggGCcccGGCCu -3'
miRNA:   3'- -GGGUCU-------UUCGG----GUCCUU-CaaCG---UCGG- -5'
27407 3' -53.2 NC_005869.1 + 18778 0.66 0.679093
Target:  5'- gCCCAGuuGGCCCGGu-AGUgGC-GUCg -3'
miRNA:   3'- -GGGUCuuUCGGGUCcuUCAaCGuCGG- -5'
27407 3' -53.2 NC_005869.1 + 5298 0.66 0.677943
Target:  5'- gCCGGAGGGCCCgcgugAGGGuggucucggugacGGUgaaggggGCGGUCu -3'
miRNA:   3'- gGGUCUUUCGGG-----UCCU-------------UCAa------CGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 20906 0.66 0.667576
Target:  5'- uCCCAGAGAGgCCAGaGAGa-GCAGg- -3'
miRNA:   3'- -GGGUCUUUCgGGUCcUUCaaCGUCgg -5'
27407 3' -53.2 NC_005869.1 + 7768 0.66 0.667576
Target:  5'- gCCGcAGGGCCUu-GAAGgcGCGGCCg -3'
miRNA:   3'- gGGUcUUUCGGGucCUUCaaCGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 13001 0.66 0.667576
Target:  5'- gCCgCGGAAggcGGCCC----AGUUGCGGCUg -3'
miRNA:   3'- -GG-GUCUU---UCGGGuccuUCAACGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 20705 0.66 0.656022
Target:  5'- cUCCAGGGAGgagCGGGAGGcgcggcggcgGCGGCCg -3'
miRNA:   3'- -GGGUCUUUCgg-GUCCUUCaa--------CGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 26759 0.67 0.644443
Target:  5'- uUCCAGcGAuCuCCAGGAAGgccGCAGCa -3'
miRNA:   3'- -GGGUCuUUcG-GGUCCUUCaa-CGUCGg -5'
27407 3' -53.2 NC_005869.1 + 27651 0.67 0.632852
Target:  5'- cUCCGGAccGCCCGGGAccuaccccgaccAGUU-CAucGCCa -3'
miRNA:   3'- -GGGUCUuuCGGGUCCU------------UCAAcGU--CGG- -5'
27407 3' -53.2 NC_005869.1 + 21130 0.67 0.62126
Target:  5'- gCCGGugaaGAAGCCCuccGAGG--GCAGCCa -3'
miRNA:   3'- gGGUC----UUUCGGGuc-CUUCaaCGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 10337 0.67 0.62126
Target:  5'- gCCCGGcgguGGCCCGGccgcuGcUGCAGCUg -3'
miRNA:   3'- -GGGUCuu--UCGGGUCcuu--CaACGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 21018 0.67 0.62126
Target:  5'- --aGGAGGGCUCugAGGAGGcUGCGGaCCg -3'
miRNA:   3'- gggUCUUUCGGG--UCCUUCaACGUC-GG- -5'
27407 3' -53.2 NC_005869.1 + 17332 0.67 0.614309
Target:  5'- uCCCAGggGGUgCAGGuGGcuuuccaaccagcgUGCuAGCCc -3'
miRNA:   3'- -GGGUCuuUCGgGUCCuUCa-------------ACG-UCGG- -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.