miRNA display CGI


Results 1 - 20 of 20 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
11413 3' -59.1 NC_003085.1 + 14920 0.73 0.175187
Target:  5'- aCCGGCCGCCagc-GCGUGGcgcUCCAAc -3'
miRNA:   3'- gGGCCGGCGGaacuCGCACC---AGGUUc -5'
11413 3' -59.1 NC_003085.1 + 46632 0.66 0.491914
Target:  5'- gCCCGGCUGCCggGcAGaCGUGuugCCAGu -3'
miRNA:   3'- -GGGCCGGCGGaaC-UC-GCACca-GGUUc -5'
11413 3' -59.1 NC_003085.1 + 5717 0.66 0.481904
Target:  5'- aCUCGGCCGUCUacucGCG-GG-CCGAGg -3'
miRNA:   3'- -GGGCCGGCGGAacu-CGCaCCaGGUUC- -5'
11413 3' -59.1 NC_003085.1 + 697 0.66 0.471993
Target:  5'- gUCCGGCCucgggcgcgGCC-UGAGCa-GGUCCAc- -3'
miRNA:   3'- -GGGCCGG---------CGGaACUCGcaCCAGGUuc -5'
11413 3' -59.1 NC_003085.1 + 35146 0.67 0.42408
Target:  5'- gCCGGCUGCCgcaacaUGAGCGgcaggaGGUucCCGAu -3'
miRNA:   3'- gGGCCGGCGGa-----ACUCGCa-----CCA--GGUUc -5'
11413 3' -59.1 NC_003085.1 + 3980 0.68 0.395875
Target:  5'- -aCGGCCGCgCUUgcGAGCGcgacacggcacagUGGcCCAAGg -3'
miRNA:   3'- ggGCCGGCG-GAA--CUCGC-------------ACCaGGUUC- -5'
11413 3' -59.1 NC_003085.1 + 43789 0.68 0.362157
Target:  5'- aCCGGCCaGCgUcaUGAGCGU-GUCCGu- -3'
miRNA:   3'- gGGCCGG-CGgA--ACUCGCAcCAGGUuc -5'
11413 3' -59.1 NC_003085.1 + 45073 0.7 0.298716
Target:  5'- gUCCGGuauCCGCCguccacaacuccuucGCGUGGUCCAGGu -3'
miRNA:   3'- -GGGCC---GGCGGaacu-----------CGCACCAGGUUC- -5'
11413 3' -59.1 NC_003085.1 + 42866 0.72 0.205093
Target:  5'- uCCCGGCCcgGCCggGGGCGUG-UCgAGGg -3'
miRNA:   3'- -GGGCCGG--CGGaaCUCGCACcAGgUUC- -5'
11413 3' -59.1 NC_003085.1 + 45114 0.7 0.299444
Target:  5'- uCCUGGCCGCUcaccgUGuGCugccGGUCCAGGu -3'
miRNA:   3'- -GGGCCGGCGGa----ACuCGca--CCAGGUUC- -5'
11413 3' -59.1 NC_003085.1 + 8655 0.69 0.314298
Target:  5'- gCCGGCCgggacgcgcgugGCCUUGGGCGccggGGUgCCGu- -3'
miRNA:   3'- gGGCCGG------------CGGAACUCGCa---CCA-GGUuc -5'
11413 3' -59.1 NC_003085.1 + 30972 0.69 0.337611
Target:  5'- gCUGGCCGCCUUGAGgaCGggGGcUgCGAGu -3'
miRNA:   3'- gGGCCGGCGGAACUC--GCa-CC-AgGUUC- -5'
11413 3' -59.1 NC_003085.1 + 27651 0.68 0.37061
Target:  5'- gCUCGGCgGCCUUGGGCGccaacuccuuGUCgAAGg -3'
miRNA:   3'- -GGGCCGgCGGAACUCGCac--------CAGgUUC- -5'
11413 3' -59.1 NC_003085.1 + 29108 0.68 0.405745
Target:  5'- aUCCGGCCGCUcccgcgcUGAGgcgcCGUGGcCCAGa -3'
miRNA:   3'- -GGGCCGGCGGa------ACUC----GCACCaGGUUc -5'
11413 3' -59.1 NC_003085.1 + 36655 0.67 0.42408
Target:  5'- gCCCGGaCCGUCa-GGGCGUGGagCAc- -3'
miRNA:   3'- -GGGCC-GGCGGaaCUCGCACCagGUuc -5'
11413 3' -59.1 NC_003085.1 + 13782 0.66 0.471993
Target:  5'- aCCuGCC-CCUUGAGCagaaucaGGUCCGGGu -3'
miRNA:   3'- gGGcCGGcGGAACUCGca-----CCAGGUUC- -5'
11413 3' -59.1 NC_003085.1 + 46250 0.66 0.491914
Target:  5'- gCCGGCauCGCCUUGcGGCaucgGG-CCAGGg -3'
miRNA:   3'- gGGCCG--GCGGAAC-UCGca--CCaGGUUC- -5'
11413 3' -59.1 NC_003085.1 + 47952 0.66 0.502019
Target:  5'- gCCUGGCgGCCgUGAGgCGcaccGG-CCGAGg -3'
miRNA:   3'- -GGGCCGgCGGaACUC-GCa---CCaGGUUC- -5'
11413 3' -59.1 NC_003085.1 + 17014 0.66 0.512214
Target:  5'- uCCaugaGGCCGC---GGGCGUucGGUCCAAc -3'
miRNA:   3'- -GGg---CCGGCGgaaCUCGCA--CCAGGUUc -5'
11413 3' -59.1 NC_003085.1 + 45910 1.1 0.00031
Target:  5'- gCCCGGCCGCCUUGAGCGUGGUCCAAGg -3'
miRNA:   3'- -GGGCCGGCGGAACUCGCACCAGGUUC- -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.