miRNA display CGI


Results 1 - 18 of 18 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
12621 3' -56.2 NC_003345.1 + 10407 0.66 0.807472
Target:  5'- gCCGGGAUgaccaacucCCGAcGAcgcCCCACGGuggGGCGu -3'
miRNA:   3'- -GGCCCUGa--------GGCUuCU---GGGUGCU---UCGU- -5'
12621 3' -56.2 NC_003345.1 + 13415 0.66 0.798282
Target:  5'- uUGGGAUUgCGAAua-CCACGAAGUg -3'
miRNA:   3'- gGCCCUGAgGCUUcugGGUGCUUCGu -5'
12621 3' -56.2 NC_003345.1 + 9055 0.66 0.788934
Target:  5'- aCGGGAUggaUUCGAGGGcguCCC-CGAAGUg -3'
miRNA:   3'- gGCCCUG---AGGCUUCU---GGGuGCUUCGu -5'
12621 3' -56.2 NC_003345.1 + 56144 0.66 0.769794
Target:  5'- aCCGGGACUCacacuugguCGA--ACCC-CGGAGUu -3'
miRNA:   3'- -GGCCCUGAG---------GCUucUGGGuGCUUCGu -5'
12621 3' -56.2 NC_003345.1 + 38727 0.66 0.760024
Target:  5'- aCGGGAa-CCGAGucGGCCCGCGccGUg -3'
miRNA:   3'- gGCCCUgaGGCUU--CUGGGUGCuuCGu -5'
12621 3' -56.2 NC_003345.1 + 34919 0.66 0.760024
Target:  5'- gUGGGuCUUCGGAGuCCCgGCGAGcGCGu -3'
miRNA:   3'- gGCCCuGAGGCUUCuGGG-UGCUU-CGU- -5'
12621 3' -56.2 NC_003345.1 + 52311 0.67 0.750133
Target:  5'- uUCaGcGGCUCCGAAggcuuuucgcuGACCCACGAgacuccGGCGa -3'
miRNA:   3'- -GGcC-CUGAGGCUU-----------CUGGGUGCU------UCGU- -5'
12621 3' -56.2 NC_003345.1 + 19960 0.67 0.719837
Target:  5'- gCCGGGgugaGCUgaCCGAAGACCUguACGuGGUg -3'
miRNA:   3'- -GGCCC----UGA--GGCUUCUGGG--UGCuUCGu -5'
12621 3' -56.2 NC_003345.1 + 23143 0.67 0.709565
Target:  5'- gCCGGGcCUCCguGAAGugCUgAgGGAGCGg -3'
miRNA:   3'- -GGCCCuGAGG--CUUCugGG-UgCUUCGU- -5'
12621 3' -56.2 NC_003345.1 + 29421 0.68 0.678369
Target:  5'- cCCGaGGAaaucaUCCGAGauggaaucGACCUACGAcaaGGCAa -3'
miRNA:   3'- -GGC-CCUg----AGGCUU--------CUGGGUGCU---UCGU- -5'
12621 3' -56.2 NC_003345.1 + 70765 0.68 0.667876
Target:  5'- aCGGGcGCUCCGA---CCCACGAcgaaguggugaAGCGc -3'
miRNA:   3'- gGCCC-UGAGGCUucuGGGUGCU-----------UCGU- -5'
12621 3' -56.2 NC_003345.1 + 74160 0.69 0.604593
Target:  5'- aCCcGGACUCCgcucgugguGAAGACCCucCGAAGaCGg -3'
miRNA:   3'- -GGcCCUGAGG---------CUUCUGGGu-GCUUC-GU- -5'
12621 3' -56.2 NC_003345.1 + 62524 0.7 0.521666
Target:  5'- gCUGGuuGCUCaGAAGACCCucaaGCGAAGCAc -3'
miRNA:   3'- -GGCCc-UGAGgCUUCUGGG----UGCUUCGU- -5'
12621 3' -56.2 NC_003345.1 + 55063 0.72 0.462464
Target:  5'- gUCGGuGACUCuaCGAGuGACCC-CGGAGCGg -3'
miRNA:   3'- -GGCC-CUGAG--GCUU-CUGGGuGCUUCGU- -5'
12621 3' -56.2 NC_003345.1 + 11482 0.73 0.406986
Target:  5'- gCCGagcggauuGGACU-CGAAGGCuCCACGAAGCu -3'
miRNA:   3'- -GGC--------CCUGAgGCUUCUG-GGUGCUUCGu -5'
12621 3' -56.2 NC_003345.1 + 14469 0.74 0.35587
Target:  5'- aCCGGGAacgucggCUGgcGACCCACG-AGCGc -3'
miRNA:   3'- -GGCCCUga-----GGCuuCUGGGUGCuUCGU- -5'
12621 3' -56.2 NC_003345.1 + 62977 0.74 0.339865
Target:  5'- cUCGGGACUCUGAGGGCuacuCCACGcucgGGGCc -3'
miRNA:   3'- -GGCCCUGAGGCUUCUG----GGUGC----UUCGu -5'
12621 3' -56.2 NC_003345.1 + 34823 1.1 0.001294
Target:  5'- gCCGGGACUCCGAAGACCCACGAAGCAc -3'
miRNA:   3'- -GGCCCUGAGGCUUCUGGGUGCUUCGU- -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.