miRNA display CGI


Results 1 - 20 of 41 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
1510 3' -50.6 NC_001335.1 + 40780 1.12 0.002042
Target:  5'- uCCGACGAACUCCAAGGAAGCGAAGUCu -3'
miRNA:   3'- -GGCUGCUUGAGGUUCCUUCGCUUCAG- -5'
1510 3' -50.6 NC_001335.1 + 40035 0.67 0.889532
Target:  5'- gUCGACGuuCUCCucGGAgacguugcgGGCGAGGcCg -3'
miRNA:   3'- -GGCUGCuuGAGGuuCCU---------UCGCUUCaG- -5'
1510 3' -50.6 NC_001335.1 + 32324 0.67 0.874014
Target:  5'- -gGugGAACgaggucagCCAGGGGgcAGCGAAGcCc -3'
miRNA:   3'- ggCugCUUGa-------GGUUCCU--UCGCUUCaG- -5'
1510 3' -50.6 NC_001335.1 + 8149 0.69 0.801052
Target:  5'- aCUG-CGAGCgacUCGAGGAcgcgguccuugagGGCGAGGUCu -3'
miRNA:   3'- -GGCuGCUUGa--GGUUCCU-------------UCGCUUCAG- -5'
1510 3' -50.6 NC_001335.1 + 1188 0.74 0.549916
Target:  5'- -gGugGAGCUgCAGGGAgcAGCGGAGg- -3'
miRNA:   3'- ggCugCUUGAgGUUCCU--UCGCUUCag -5'
1510 3' -50.6 NC_001335.1 + 2256 0.74 0.537802
Target:  5'- uCCGACGAgaagcucgccgaaGC-CCAGcGGGccAGCGAGGUCg -3'
miRNA:   3'- -GGCUGCU-------------UGaGGUU-CCU--UCGCUUCAG- -5'
1510 3' -50.6 NC_001335.1 + 47179 0.67 0.903943
Target:  5'- gCCGACGcggucuGGC-CCGAacucGGGAGCGAAGcCc -3'
miRNA:   3'- -GGCUGC------UUGaGGUU----CCUUCGCUUCaG- -5'
1510 3' -50.6 NC_001335.1 + 23696 0.67 0.881908
Target:  5'- aUCGACGucaucCUCCucgGAGGAGGCGGcgggGGUa -3'
miRNA:   3'- -GGCUGCuu---GAGG---UUCCUUCGCU----UCAg -5'
1510 3' -50.6 NC_001335.1 + 37883 0.71 0.707125
Target:  5'- aCCgGGCGAACUCCAuaccGGCGucGUCg -3'
miRNA:   3'- -GG-CUGCUUGAGGUuccuUCGCuuCAG- -5'
1510 3' -50.6 NC_001335.1 + 6594 0.74 0.527959
Target:  5'- aCGACGAA-UCUgagaAAGGAGGCGggGUg -3'
miRNA:   3'- gGCUGCUUgAGG----UUCCUUCGCuuCAg -5'
1510 3' -50.6 NC_001335.1 + 31861 0.77 0.368022
Target:  5'- gCUGACGGACUCCAugauguGGA--CGAGGUCg -3'
miRNA:   3'- -GGCUGCUUGAGGUu-----CCUucGCUUCAG- -5'
1510 3' -50.6 NC_001335.1 + 24372 0.67 0.906689
Target:  5'- gCGGCGAACguagcgCCGAcagcgcggaggucguGGAuGCGGAGUUc -3'
miRNA:   3'- gGCUGCUUGa-----GGUU---------------CCUuCGCUUCAG- -5'
1510 3' -50.6 NC_001335.1 + 4871 0.77 0.377017
Target:  5'- cUCGuCGGGCUCCAGcacGGAggcGGCGggGUCu -3'
miRNA:   3'- -GGCuGCUUGAGGUU---CCU---UCGCuuCAG- -5'
1510 3' -50.6 NC_001335.1 + 1076 0.67 0.874014
Target:  5'- gCCGAUGGGaggCCGGGGAaguaaaGGCGGccccGGUCc -3'
miRNA:   3'- -GGCUGCUUga-GGUUCCU------UCGCU----UCAG- -5'
1510 3' -50.6 NC_001335.1 + 2562 0.66 0.934932
Target:  5'- cCCGACGGcgggaacuuagaGCcCgGAGGAAGCGAc--- -3'
miRNA:   3'- -GGCUGCU------------UGaGgUUCCUUCGCUucag -5'
1510 3' -50.6 NC_001335.1 + 3082 0.67 0.901853
Target:  5'- aCCGACGuGCUcaagcagcgccucgCCAAGGcGAGCGGcgggagcugauGGUCc -3'
miRNA:   3'- -GGCUGCuUGA--------------GGUUCC-UUCGCU-----------UCAG- -5'
1510 3' -50.6 NC_001335.1 + 23779 0.68 0.865855
Target:  5'- cCCGcCGccucCUCCGAGGAGGaUGAcGUCg -3'
miRNA:   3'- -GGCuGCuu--GAGGUUCCUUC-GCUuCAG- -5'
1510 3' -50.6 NC_001335.1 + 35478 0.67 0.874014
Target:  5'- gCCGcCGAuCUCCGAguucuuGGGAGgGAGGUg -3'
miRNA:   3'- -GGCuGCUuGAGGUU------CCUUCgCUUCAg -5'
1510 3' -50.6 NC_001335.1 + 7323 0.67 0.87641
Target:  5'- aCGACGAACgucgggcgguuacccUCCAucgacgcGGGGcuCGAGGUCg -3'
miRNA:   3'- gGCUGCUUG---------------AGGU-------UCCUucGCUUCAG- -5'
1510 3' -50.6 NC_001335.1 + 32238 0.67 0.892504
Target:  5'- gCCGACGAGCUggCCGAGuucGCGGgccggaacugcuaccGGUCg -3'
miRNA:   3'- -GGCUGCUUGA--GGUUCcuuCGCU---------------UCAG- -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.