miRNA display CGI


Results 1 - 19 of 19 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
9486 3' -63.1 NC_002531.1 + 85483 0.66 0.532535
Target:  5'- gGGCCCCAGUuagaauaauGUCUucucgacaaGCCUucCAGGAGCc -3'
miRNA:   3'- gUCGGGGUCG---------CGGA---------CGGAc-GUCCUCG- -5'
9486 3' -63.1 NC_002531.1 + 124604 0.66 0.522884
Target:  5'- gGGCCCgAcGUGCCUuucGCCcaGCAGGuGGCu -3'
miRNA:   3'- gUCGGGgU-CGCGGA---CGGa-CGUCC-UCG- -5'
9486 3' -63.1 NC_002531.1 + 57022 0.66 0.509489
Target:  5'- cCAGCCCUucaaaagGCCUGCgAGGAGCu -3'
miRNA:   3'- -GUCGGGGucgcggaCGGACG-UCCUCG- -5'
9486 3' -63.1 NC_002531.1 + 54403 0.66 0.503792
Target:  5'- gCGGUUCgGcGCGCCUGCCgguuaGCGGGuGGUa -3'
miRNA:   3'- -GUCGGGgU-CGCGGACGGa----CGUCC-UCG- -5'
9486 3' -63.1 NC_002531.1 + 121718 0.66 0.503792
Target:  5'- aCAGCCCagggagaaGGUGUCUGCuCUGUuaaaaaaaugAGGAGg -3'
miRNA:   3'- -GUCGGGg-------UCGCGGACG-GACG----------UCCUCg -5'
9486 3' -63.1 NC_002531.1 + 11853 0.66 0.49436
Target:  5'- cCAGCCUgcgaaGGCucuaCCUGCCUGCGGucAGCg -3'
miRNA:   3'- -GUCGGGg----UCGc---GGACGGACGUCc-UCG- -5'
9486 3' -63.1 NC_002531.1 + 104996 0.66 0.491546
Target:  5'- aGGCCCUGGCcucugcucucaaGUCuugcugugaagacgUGCCuUGCGGGAGCc -3'
miRNA:   3'- gUCGGGGUCG------------CGG--------------ACGG-ACGUCCUCG- -5'
9486 3' -63.1 NC_002531.1 + 122975 0.66 0.485009
Target:  5'- -uGCUCC-GCGCCUGCCggGCcuucgcuGAGCa -3'
miRNA:   3'- guCGGGGuCGCGGACGGa-CGuc-----CUCG- -5'
9486 3' -63.1 NC_002531.1 + 63621 0.67 0.475743
Target:  5'- gGGCCaagauauuCCAGUGCCgUGCCUG-AGG-GCc -3'
miRNA:   3'- gUCGG--------GGUCGCGG-ACGGACgUCCuCG- -5'
9486 3' -63.1 NC_002531.1 + 66311 0.67 0.443146
Target:  5'- aCAGCCCCgugcAGCGCCuUgcugaaaaugucaugGCCUGuCAccgcaccauGGAGCa -3'
miRNA:   3'- -GUCGGGG----UCGCGG-A---------------CGGAC-GU---------CCUCG- -5'
9486 3' -63.1 NC_002531.1 + 35792 0.67 0.422128
Target:  5'- aCAGCUgCgAGCGCCcgGCCucUGagAGGAGCa -3'
miRNA:   3'- -GUCGGgG-UCGCGGa-CGG--ACg-UCCUCG- -5'
9486 3' -63.1 NC_002531.1 + 24218 0.68 0.413549
Target:  5'- aAGCUgUagAGCGCCaGgCUGCAGGAcGCg -3'
miRNA:   3'- gUCGGgG--UCGCGGaCgGACGUCCU-CG- -5'
9486 3' -63.1 NC_002531.1 + 67025 0.68 0.393404
Target:  5'- gGGCCCC--CGCCUGCCcuucucaaccuacUGCauaacgggcacggcGGGAGCu -3'
miRNA:   3'- gUCGGGGucGCGGACGG-------------ACG--------------UCCUCG- -5'
9486 3' -63.1 NC_002531.1 + 128913 0.69 0.364408
Target:  5'- aGGUUCU--UGCCUGCCucuaccUGCAGGAGCu -3'
miRNA:   3'- gUCGGGGucGCGGACGG------ACGUCCUCG- -5'
9486 3' -63.1 NC_002531.1 + 87483 0.69 0.34895
Target:  5'- gAGUCCCucaAGCaGCCaGCCgaaCAGGAGCa -3'
miRNA:   3'- gUCGGGG---UCG-CGGaCGGac-GUCCUCG- -5'
9486 3' -63.1 NC_002531.1 + 58206 0.7 0.312383
Target:  5'- uGGCCCuCAGcCGCuCUGUUUGCuGGAcGCg -3'
miRNA:   3'- gUCGGG-GUC-GCG-GACGGACGuCCU-CG- -5'
9486 3' -63.1 NC_002531.1 + 129470 0.71 0.24815
Target:  5'- gAGCCCCuagguccuugGGCGggguCUUGCCUGCAGGcccGCa -3'
miRNA:   3'- gUCGGGG----------UCGC----GGACGGACGUCCu--CG- -5'
9486 3' -63.1 NC_002531.1 + 95859 0.72 0.231134
Target:  5'- uCAGCCuguCCAGUGUagaGCCaUGUAGGAGCa -3'
miRNA:   3'- -GUCGG---GGUCGCGga-CGG-ACGUCCUCG- -5'
9486 3' -63.1 NC_002531.1 + 46983 1.1 0.00036
Target:  5'- aCAGCCCCAGCGCCUGCCUGCAGGAGCu -3'
miRNA:   3'- -GUCGGGGUCGCGGACGGACGUCCUCG- -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.