miRNA display CGI


Results 1 - 20 of 21 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
16200 3' -51 NC_004065.1 + 197946 0.66 0.999321
Target:  5'- gCGAUaacuUCCGUGagGGucuGUCUGuGUCGg -3'
miRNA:   3'- gGCUG----AGGUACagCUu--CAGACuCAGC- -5'
16200 3' -51 NC_004065.1 + 134303 0.66 0.999321
Target:  5'- gCUGGCUaCCAUccgaauaUCGGAGuUCUGGGUUGa -3'
miRNA:   3'- -GGCUGA-GGUAc------AGCUUC-AGACUCAGC- -5'
16200 3' -51 NC_004065.1 + 109086 0.66 0.999321
Target:  5'- uCCgGGC-CCAUGUCGGAcauUCUGGG-CGg -3'
miRNA:   3'- -GG-CUGaGGUACAGCUUc--AGACUCaGC- -5'
16200 3' -51 NC_004065.1 + 170388 0.66 0.999156
Target:  5'- aCCGGCUggaCCGUGUCGAccgacgcGGUCaucaagaugUGcGUCGa -3'
miRNA:   3'- -GGCUGA---GGUACAGCU-------UCAG---------ACuCAGC- -5'
16200 3' -51 NC_004065.1 + 175651 0.66 0.998548
Target:  5'- -gGACcgCCAUcacgGUCGGAGUCUGuguGUCc -3'
miRNA:   3'- ggCUGa-GGUA----CAGCUUCAGACu--CAGc -5'
16200 3' -51 NC_004065.1 + 125492 0.66 0.998548
Target:  5'- cCCGuuCUCCGUGUgGAAG-CaGaAGUCGa -3'
miRNA:   3'- -GGCu-GAGGUACAgCUUCaGaC-UCAGC- -5'
16200 3' -51 NC_004065.1 + 192661 0.66 0.998548
Target:  5'- cUCGACUCUAcucaCGAAGUCgUGuGUCGu -3'
miRNA:   3'- -GGCUGAGGUaca-GCUUCAG-ACuCAGC- -5'
16200 3' -51 NC_004065.1 + 199329 0.67 0.998266
Target:  5'- aUCGGCUUCGUGagaCGggGUCUGcgcaGGuUCGa -3'
miRNA:   3'- -GGCUGAGGUACa--GCuuCAGAC----UC-AGC- -5'
16200 3' -51 NC_004065.1 + 162240 0.67 0.997939
Target:  5'- cCCGACUUg--GaCGAAGUCUGGG-CGc -3'
miRNA:   3'- -GGCUGAGguaCaGCUUCAGACUCaGC- -5'
16200 3' -51 NC_004065.1 + 36428 0.67 0.997939
Target:  5'- aCGGCUCCAcgGUCaAGGUCUG-G-CGa -3'
miRNA:   3'- gGCUGAGGUa-CAGcUUCAGACuCaGC- -5'
16200 3' -51 NC_004065.1 + 157122 0.67 0.997562
Target:  5'- gCGACUCgCGaa-CGAGGUC-GAGUCGa -3'
miRNA:   3'- gGCUGAG-GUacaGCUUCAGaCUCAGC- -5'
16200 3' -51 NC_004065.1 + 57172 0.67 0.997129
Target:  5'- aUGACUUCAUGUacaucccaaCGAAGUgacggaacccaCUGAGUCu -3'
miRNA:   3'- gGCUGAGGUACA---------GCUUCA-----------GACUCAGc -5'
16200 3' -51 NC_004065.1 + 127615 0.68 0.996071
Target:  5'- gCCGGCUCCucccguccGUCGAcgAGgcgCUGAGUg- -3'
miRNA:   3'- -GGCUGAGGua------CAGCU--UCa--GACUCAgc -5'
16200 3' -51 NC_004065.1 + 96314 0.68 0.996071
Target:  5'- aCgGACUCCGUcUCGggGUCcaaGGGcUCGu -3'
miRNA:   3'- -GgCUGAGGUAcAGCuuCAGa--CUC-AGC- -5'
16200 3' -51 NC_004065.1 + 131222 0.69 0.988253
Target:  5'- gCCGcagaAgUCgAUGUCGggGUCUcGGUCGu -3'
miRNA:   3'- -GGC----UgAGgUACAGCuuCAGAcUCAGC- -5'
16200 3' -51 NC_004065.1 + 176877 0.7 0.98329
Target:  5'- aCGGCUCCc-GUCGAGGcUCUGGGa-- -3'
miRNA:   3'- gGCUGAGGuaCAGCUUC-AGACUCagc -5'
16200 3' -51 NC_004065.1 + 118339 0.7 0.981326
Target:  5'- gCCGACgUCCAUggcgucggcGUCGgcGUCUGGaUCGa -3'
miRNA:   3'- -GGCUG-AGGUA---------CAGCuuCAGACUcAGC- -5'
16200 3' -51 NC_004065.1 + 29922 0.7 0.974396
Target:  5'- aCCGACgCCGUcuucGUCaGAGUCUGAGcaUCGa -3'
miRNA:   3'- -GGCUGaGGUA----CAGcUUCAGACUC--AGC- -5'
16200 3' -51 NC_004065.1 + 185187 0.71 0.962475
Target:  5'- uCCGGC-CCGUGUCGcuGUCcGuGUCGc -3'
miRNA:   3'- -GGCUGaGGUACAGCuuCAGaCuCAGC- -5'
16200 3' -51 NC_004065.1 + 186836 0.72 0.947154
Target:  5'- aCGGCUCCucuUG-CGucGUCUGuGUCGg -3'
miRNA:   3'- gGCUGAGGu--ACaGCuuCAGACuCAGC- -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.