miRNA display CGI


Results 1 - 20 of 22 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
18358 3' -58.2 NC_004681.1 + 67097 0.66 0.659677
Target:  5'- --cGCUGGAgaacggguagguCCCGGCUucagCgaCCGCGg -3'
miRNA:   3'- guuCGACCU------------GGGCCGGua--GaaGGCGC- -5'
18358 3' -58.2 NC_004681.1 + 52852 0.66 0.659676
Target:  5'- cCGGGC-GGAaggCUGGCCAUCggccugcCCGCGu -3'
miRNA:   3'- -GUUCGaCCUg--GGCCGGUAGaa-----GGCGC- -5'
18358 3' -58.2 NC_004681.1 + 67178 0.66 0.649112
Target:  5'- uCGGGCUGGugaCgGGCCGcgaggaaaUCaggUCCGCGa -3'
miRNA:   3'- -GUUCGACCug-GgCCGGU--------AGa--AGGCGC- -5'
18358 3' -58.2 NC_004681.1 + 74726 0.66 0.649111
Target:  5'- gCAAGCacUGGAgcaUCCGGCCgcggguGUCcUCCGCc -3'
miRNA:   3'- -GUUCG--ACCU---GGGCCGG------UAGaAGGCGc -5'
18358 3' -58.2 NC_004681.1 + 39526 0.66 0.638532
Target:  5'- gCGGGCUGGcaauCCCGGCgucagAUCgaCCGCu -3'
miRNA:   3'- -GUUCGACCu---GGGCCGg----UAGaaGGCGc -5'
18358 3' -58.2 NC_004681.1 + 30761 0.66 0.627947
Target:  5'- gCGGGCUccaaGGGCCUGGUCAccaaCggCCGCGc -3'
miRNA:   3'- -GUUCGA----CCUGGGCCGGUa---GaaGGCGC- -5'
18358 3' -58.2 NC_004681.1 + 23667 0.66 0.617366
Target:  5'- uCGAGCUGGccuCCuaCGcGCCcgCcUCCGCGg -3'
miRNA:   3'- -GUUCGACCu--GG--GC-CGGuaGaAGGCGC- -5'
18358 3' -58.2 NC_004681.1 + 56892 0.67 0.606797
Target:  5'- gGAGaUGGACCgGGUCAgCUUCgGUGg -3'
miRNA:   3'- gUUCgACCUGGgCCGGUaGAAGgCGC- -5'
18358 3' -58.2 NC_004681.1 + 46067 0.67 0.5648
Target:  5'- -uGGCUGGACauGGaaGUCggCCGCGa -3'
miRNA:   3'- guUCGACCUGggCCggUAGaaGGCGC- -5'
18358 3' -58.2 NC_004681.1 + 39044 0.68 0.545105
Target:  5'- cCAAGCUGGACCagaaGGUgGUCaagcaccuguccgaCCGCGc -3'
miRNA:   3'- -GUUCGACCUGGg---CCGgUAGaa------------GGCGC- -5'
18358 3' -58.2 NC_004681.1 + 18944 0.68 0.544075
Target:  5'- gAAGCU-GACCCGGuCCAUC--CCGgGg -3'
miRNA:   3'- gUUCGAcCUGGGCC-GGUAGaaGGCgC- -5'
18358 3' -58.2 NC_004681.1 + 64307 0.68 0.543045
Target:  5'- gAAGgUGGACCCaguagcgGGCCGuguagcacUCUUCUGUGu -3'
miRNA:   3'- gUUCgACCUGGG-------CCGGU--------AGAAGGCGC- -5'
18358 3' -58.2 NC_004681.1 + 53267 0.68 0.513478
Target:  5'- -cGGCUGGcgACCCaGaCCAUCUUCUGgGu -3'
miRNA:   3'- guUCGACC--UGGGcC-GGUAGAAGGCgC- -5'
18358 3' -58.2 NC_004681.1 + 16176 0.69 0.464166
Target:  5'- --cGCUGucCUCGGCCAUCUUCaugGCa -3'
miRNA:   3'- guuCGACcuGGGCCGGUAGAAGg--CGc -5'
18358 3' -58.2 NC_004681.1 + 61040 0.69 0.4546
Target:  5'- -cAGCUGGGCgCCagccuucaggauGGCCAgggCgUCCGCGg -3'
miRNA:   3'- guUCGACCUG-GG------------CCGGUa--GaAGGCGC- -5'
18358 3' -58.2 NC_004681.1 + 1407 0.69 0.44514
Target:  5'- gCAAGaugaUGGGCCacgaauacaCGGCCAUUggcgCCGCGg -3'
miRNA:   3'- -GUUCg---ACCUGG---------GCCGGUAGaa--GGCGC- -5'
18358 3' -58.2 NC_004681.1 + 44136 0.7 0.417442
Target:  5'- gAGGCcgcGGGCCUGGCCcUCaccggCCGCGa -3'
miRNA:   3'- gUUCGa--CCUGGGCCGGuAGaa---GGCGC- -5'
18358 3' -58.2 NC_004681.1 + 47948 0.71 0.3737
Target:  5'- aCGAGUUGGugccGCCCGaGCCAUg-UCCGCc -3'
miRNA:   3'- -GUUCGACC----UGGGC-CGGUAgaAGGCGc -5'
18358 3' -58.2 NC_004681.1 + 63315 0.71 0.362848
Target:  5'- gAAGcCUGcGACUCGGCgGUCUcgccguugcugccuUCCGCGg -3'
miRNA:   3'- gUUC-GAC-CUGGGCCGgUAGA--------------AGGCGC- -5'
18358 3' -58.2 NC_004681.1 + 32081 0.75 0.209089
Target:  5'- gAAGCUGGACCCGGCCgacaagGUCgucaCCgGCa -3'
miRNA:   3'- gUUCGACCUGGGCCGG------UAGaa--GG-CGc -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.