miRNA display CGI


Results 1 - 20 of 51 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
23407 3' -54.1 NC_005259.1 + 68864 0.7 0.642398
Target:  5'- uCGACuuGCCcgCGccGGGCGCgcCGAUGAGGu -3'
miRNA:   3'- -GCUG--CGGuaGU--UCCGCGa-GUUGCUCC- -5'
23407 3' -54.1 NC_005259.1 + 67914 0.66 0.825682
Target:  5'- uCGGCGagGUCAAGcGCGUaggUC-GCGAGGa -3'
miRNA:   3'- -GCUGCggUAGUUC-CGCG---AGuUGCUCC- -5'
23407 3' -54.1 NC_005259.1 + 67415 0.66 0.831025
Target:  5'- cCGACaCCAUCGGGGUgccggGCUCAcgcuugagcgcguCGGGGa -3'
miRNA:   3'- -GCUGcGGUAGUUCCG-----CGAGUu------------GCUCC- -5'
23407 3' -54.1 NC_005259.1 + 64342 0.68 0.73823
Target:  5'- gGACuGCCAcUCGuugcGGGCGgugcccaUCAGCGAGGu -3'
miRNA:   3'- gCUG-CGGU-AGU----UCCGCg------AGUUGCUCC- -5'
23407 3' -54.1 NC_005259.1 + 64019 0.69 0.674789
Target:  5'- -cGCGCC--CGAGGCGCg--GCGAGGc -3'
miRNA:   3'- gcUGCGGuaGUUCCGCGaguUGCUCC- -5'
23407 3' -54.1 NC_005259.1 + 63538 0.67 0.807372
Target:  5'- gGAC-CUuuUCGAGGUGCUCGGCGGc- -3'
miRNA:   3'- gCUGcGGu-AGUUCCGCGAGUUGCUcc -5'
23407 3' -54.1 NC_005259.1 + 63288 0.69 0.706828
Target:  5'- uCGAUGCCuUCAc-GUGCgagCAGCGGGGu -3'
miRNA:   3'- -GCUGCGGuAGUucCGCGa--GUUGCUCC- -5'
23407 3' -54.1 NC_005259.1 + 61495 0.69 0.674789
Target:  5'- -cGCGaCCGUUGAGGCGCUCggUGugccGGu -3'
miRNA:   3'- gcUGC-GGUAGUUCCGCGAGuuGCu---CC- -5'
23407 3' -54.1 NC_005259.1 + 60335 0.67 0.797945
Target:  5'- uGACGC--UCAAGGCGgcgaUCAGguCGAGGc -3'
miRNA:   3'- gCUGCGguAGUUCCGCg---AGUU--GCUCC- -5'
23407 3' -54.1 NC_005259.1 + 58786 0.7 0.631569
Target:  5'- -uGCGCCgGUCGAGGCGgugauugcCUCGGCGGGc -3'
miRNA:   3'- gcUGCGG-UAGUUCCGC--------GAGUUGCUCc -5'
23407 3' -54.1 NC_005259.1 + 54955 0.7 0.631569
Target:  5'- uCGACGCgucaucguCGUCAAGGCGCUCGuGCa--- -3'
miRNA:   3'- -GCUGCG--------GUAGUUCCGCGAGU-UGcucc -5'
23407 3' -54.1 NC_005259.1 + 52401 0.73 0.444446
Target:  5'- uCGG-GCCAUCGagguguGGGCGCUCGACucGGg -3'
miRNA:   3'- -GCUgCGGUAGU------UCCGCGAGUUGcuCC- -5'
23407 3' -54.1 NC_005259.1 + 51775 0.68 0.73823
Target:  5'- gCGAgCGCCuugaggUAuucGGCGCUCGGCGGGu -3'
miRNA:   3'- -GCU-GCGGua----GUu--CCGCGAGUUGCUCc -5'
23407 3' -54.1 NC_005259.1 + 48424 0.69 0.674789
Target:  5'- gCGAcCGCCAccacCGAGGCGCgaggCAGCGGc- -3'
miRNA:   3'- -GCU-GCGGUa---GUUCCGCGa---GUUGCUcc -5'
23407 3' -54.1 NC_005259.1 + 46656 0.68 0.758665
Target:  5'- aCGGCuGCgGUUGAGGUuCUCGGCGAGc -3'
miRNA:   3'- -GCUG-CGgUAGUUCCGcGAGUUGCUCc -5'
23407 3' -54.1 NC_005259.1 + 41640 0.69 0.664018
Target:  5'- gCGGUGCCgGUCugcGGGCGCUCggUGAGcGg -3'
miRNA:   3'- -GCUGCGG-UAGu--UCCGCGAGuuGCUC-C- -5'
23407 3' -54.1 NC_005259.1 + 41479 0.69 0.685522
Target:  5'- uGACGCCGUCGAGcaCGacCUCGGCGGuGGc -3'
miRNA:   3'- gCUGCGGUAGUUCc-GC--GAGUUGCU-CC- -5'
23407 3' -54.1 NC_005259.1 + 36631 0.7 0.642398
Target:  5'- gCGcCGCCcgCAAGGCccGCgaUCAGCGAGc -3'
miRNA:   3'- -GCuGCGGuaGUUCCG--CG--AGUUGCUCc -5'
23407 3' -54.1 NC_005259.1 + 36019 0.74 0.397903
Target:  5'- gGugGCCAgCGAGGuCGacaugaUCAGCGAGGc -3'
miRNA:   3'- gCugCGGUaGUUCC-GCg-----AGUUGCUCC- -5'
23407 3' -54.1 NC_005259.1 + 35689 0.72 0.535177
Target:  5'- gCGACGCCGUgcccggCGAGGgguCGCU-GACGAGGu -3'
miRNA:   3'- -GCUGCGGUA------GUUCC---GCGAgUUGCUCC- -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.