miRNA display CGI


Results 1 - 20 of 23 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
13286 3' -63.5 NC_003409.1 + 103419 0.66 0.548287
Target:  5'- gGCCUCCCugGUGGCCuGuucgauGGUCUgUa -3'
miRNA:   3'- gUGGAGGGugCACCGGuC------UCGGGgGc -5'
13286 3' -63.5 NC_003409.1 + 111956 0.66 0.548287
Target:  5'- uGCUUCCCGagacccccaGUGaGUCcuGGCCCCCGg -3'
miRNA:   3'- gUGGAGGGUg--------CAC-CGGucUCGGGGGC- -5'
13286 3' -63.5 NC_003409.1 + 55842 0.66 0.538746
Target:  5'- gACCUCCCACG-GGUCGccgacauuGAcGCCCUgGu -3'
miRNA:   3'- gUGGAGGGUGCaCCGGU--------CU-CGGGGgC- -5'
13286 3' -63.5 NC_003409.1 + 7630 0.66 0.519842
Target:  5'- gGCaUCCgA-GUGGCCAGAGCUCCa- -3'
miRNA:   3'- gUGgAGGgUgCACCGGUCUCGGGGgc -5'
13286 3' -63.5 NC_003409.1 + 11010 0.66 0.519842
Target:  5'- gCACCUCCUA-GcGG-CGGAGCCCCa- -3'
miRNA:   3'- -GUGGAGGGUgCaCCgGUCUCGGGGgc -5'
13286 3' -63.5 NC_003409.1 + 20627 0.67 0.482865
Target:  5'- -cCCUCCCuucUGUGcGCCAGGccGCgCCCGg -3'
miRNA:   3'- guGGAGGGu--GCAC-CGGUCU--CGgGGGC- -5'
13286 3' -63.5 NC_003409.1 + 118001 0.67 0.473818
Target:  5'- -cCC-CCCGaGUGGCCAGcguGGCCCCg- -3'
miRNA:   3'- guGGaGGGUgCACCGGUC---UCGGGGgc -5'
13286 3' -63.5 NC_003409.1 + 113026 0.67 0.473818
Target:  5'- gGCCUCCCG-GaGGCCGGuaucugccGCCCCUa -3'
miRNA:   3'- gUGGAGGGUgCaCCGGUCu-------CGGGGGc -5'
13286 3' -63.5 NC_003409.1 + 79784 0.68 0.455102
Target:  5'- aCGCCUCCa--GUGGCCGGccGCcaaggaaCCCCGa -3'
miRNA:   3'- -GUGGAGGgugCACCGGUCu-CG-------GGGGC- -5'
13286 3' -63.5 NC_003409.1 + 85352 0.68 0.438519
Target:  5'- uCGCCUCUCuauaucUGaUGGCCGGuGGCuCCCCGg -3'
miRNA:   3'- -GUGGAGGGu-----GC-ACCGGUC-UCG-GGGGC- -5'
13286 3' -63.5 NC_003409.1 + 112008 0.68 0.438519
Target:  5'- cCGCC-CCCGCgGUGGCCGacgcGAGgaaaCCCCCc -3'
miRNA:   3'- -GUGGaGGGUG-CACCGGU----CUC----GGGGGc -5'
13286 3' -63.5 NC_003409.1 + 112963 0.68 0.413055
Target:  5'- uCugUUCUCGCGUGGCCcGcgcGGCCCuuGc -3'
miRNA:   3'- -GugGAGGGUGCACCGGuC---UCGGGggC- -5'
13286 3' -63.5 NC_003409.1 + 125466 0.68 0.413055
Target:  5'- uGgCUCCCGCugcuGUGGCUcccgcugcuGGGGCUCCCGc -3'
miRNA:   3'- gUgGAGGGUG----CACCGG---------UCUCGGGGGC- -5'
13286 3' -63.5 NC_003409.1 + 44174 0.68 0.408073
Target:  5'- aACCaCCCACGUcucggucgacuggauGGCCGGGgauucuacGCCCCUGa -3'
miRNA:   3'- gUGGaGGGUGCA---------------CCGGUCU--------CGGGGGC- -5'
13286 3' -63.5 NC_003409.1 + 18964 0.69 0.371932
Target:  5'- uGCC-CCCGCGgGGCCauuuuggucgccuGGAgcuGCCCCCGc -3'
miRNA:   3'- gUGGaGGGUGCaCCGG-------------UCU---CGGGGGC- -5'
13286 3' -63.5 NC_003409.1 + 133772 0.7 0.34242
Target:  5'- gGCCUagCCACG-GGCUGGGGaCCCUCGg -3'
miRNA:   3'- gUGGAg-GGUGCaCCGGUCUC-GGGGGC- -5'
13286 3' -63.5 NC_003409.1 + 109316 0.7 0.327955
Target:  5'- gCGCCgucuugggCCCACGgGaGCCGGAGCacgccgCCCCGg -3'
miRNA:   3'- -GUGGa-------GGGUGCaC-CGGUCUCG------GGGGC- -5'
13286 3' -63.5 NC_003409.1 + 24111 0.71 0.268509
Target:  5'- cCACCgaacaaCCC-CGUGGaCAGGGCCCCUa -3'
miRNA:   3'- -GUGGa-----GGGuGCACCgGUCUCGGGGGc -5'
13286 3' -63.5 NC_003409.1 + 42029 0.74 0.18912
Target:  5'- cCACC-CCCACGUGGCCAuGaAGCUgCUGa -3'
miRNA:   3'- -GUGGaGGGUGCACCGGU-C-UCGGgGGC- -5'
13286 3' -63.5 NC_003409.1 + 19277 0.74 0.171747
Target:  5'- aGCCaaaCCCACGUcgcagcggcaaGGCCAGcGGCCCCCa -3'
miRNA:   3'- gUGGa--GGGUGCA-----------CCGGUC-UCGGGGGc -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.