miRNA display CGI


Results 1 - 20 of 43 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
29507 3' -59.3 NC_006151.1 + 2372 0.66 0.726557
Target:  5'- aAGGCGCgcaacuCGGccgGCaGGCCCUCGggGc -3'
miRNA:   3'- gUCCGCG------GCCa--UGaCCGGGAGCaaCu -5'
29507 3' -59.3 NC_006151.1 + 3134 0.66 0.764653
Target:  5'- cCGGGCGCgGGgc---GCCCUCGgcGGg -3'
miRNA:   3'- -GUCCGCGgCCaugacCGGGAGCaaCU- -5'
29507 3' -59.3 NC_006151.1 + 3485 0.71 0.461654
Target:  5'- gCGGGCGCCGGaGCcGGUcguCCUCGgagGAg -3'
miRNA:   3'- -GUCCGCGGCCaUGaCCG---GGAGCaa-CU- -5'
29507 3' -59.3 NC_006151.1 + 4615 0.67 0.686205
Target:  5'- gGGGCGCguggaccCGGcGCUGGCagaaCUgGUUGAa -3'
miRNA:   3'- gUCCGCG-------GCCaUGACCGg---GAgCAACU- -5'
29507 3' -59.3 NC_006151.1 + 5096 0.66 0.755278
Target:  5'- gCGGGCGCCGGcggagACgguggcGGCCCggcgCGggcgagUGGg -3'
miRNA:   3'- -GUCCGCGGCCa----UGa-----CCGGGa---GCa-----ACU- -5'
29507 3' -59.3 NC_006151.1 + 5639 0.68 0.606879
Target:  5'- cCGGGCGCCGaG-ACcGGCCCggcggCGggGGa -3'
miRNA:   3'- -GUCCGCGGC-CaUGaCCGGGa----GCaaCU- -5'
29507 3' -59.3 NC_006151.1 + 17108 0.66 0.773914
Target:  5'- gGGGCGCCGGg---GGCUC-CGgcGGc -3'
miRNA:   3'- gUCCGCGGCCaugaCCGGGaGCaaCU- -5'
29507 3' -59.3 NC_006151.1 + 19355 0.69 0.596843
Target:  5'- gAGGCGUCGugcagcguGUAgaGGCCCgugUCGUUGGg -3'
miRNA:   3'- gUCCGCGGC--------CAUgaCCGGG---AGCAACU- -5'
29507 3' -59.3 NC_006151.1 + 21546 0.7 0.527649
Target:  5'- -cGGgGCCGGggcCUGGgCCUCGgcGAg -3'
miRNA:   3'- guCCgCGGCCau-GACCgGGAGCaaCU- -5'
29507 3' -59.3 NC_006151.1 + 21865 1.08 0.00146
Target:  5'- cCAGGCGCCGGUACUGGCCCUCGUUGAa -3'
miRNA:   3'- -GUCCGCGGCCAUGACCGGGAGCAACU- -5'
29507 3' -59.3 NC_006151.1 + 23904 0.68 0.646128
Target:  5'- uGGGCGUCGGUcGCgGGCCCgacgggccgccggUCGUcgUGGa -3'
miRNA:   3'- gUCCGCGGCCA-UGaCCGGG-------------AGCA--ACU- -5'
29507 3' -59.3 NC_006151.1 + 28811 0.68 0.657188
Target:  5'- aCGGGCGuCCGGgaccggccaaUGCgGGCCC-CGggGAc -3'
miRNA:   3'- -GUCCGC-GGCC----------AUGaCCGGGaGCaaCU- -5'
29507 3' -59.3 NC_006151.1 + 35419 0.67 0.707002
Target:  5'- gCGGGgGCCGGgcaUGCaaaUGGUCCUCGcgagGAa -3'
miRNA:   3'- -GUCCgCGGCC---AUG---ACCGGGAGCaa--CU- -5'
29507 3' -59.3 NC_006151.1 + 39460 0.68 0.626999
Target:  5'- cCAGuGCGCCGuGcGCUGGCCCggGUg-- -3'
miRNA:   3'- -GUC-CGCGGC-CaUGACCGGGagCAacu -5'
29507 3' -59.3 NC_006151.1 + 40084 0.76 0.238469
Target:  5'- uCGGGCGCCGGgGCcGGCCC-CGgcGAg -3'
miRNA:   3'- -GUCCGCGGCCaUGaCCGGGaGCaaCU- -5'
29507 3' -59.3 NC_006151.1 + 43941 0.66 0.755278
Target:  5'- gAGGgGCCGGg---GGCCCUCc---- -3'
miRNA:   3'- gUCCgCGGCCaugaCCGGGAGcaacu -5'
29507 3' -59.3 NC_006151.1 + 46723 0.69 0.596843
Target:  5'- uCGGGgGCCGGgGCcGGCCCggggUCGgcGAa -3'
miRNA:   3'- -GUCCgCGGCCaUGaCCGGG----AGCaaCU- -5'
29507 3' -59.3 NC_006151.1 + 52469 0.69 0.547169
Target:  5'- cCAGGCGCCGGUA--GGCCgC-CG-UGAc -3'
miRNA:   3'- -GUCCGCGGCCAUgaCCGG-GaGCaACU- -5'
29507 3' -59.3 NC_006151.1 + 54419 0.67 0.707002
Target:  5'- gAGGCGCUGGcGC-GGCgCUUCGgcGAc -3'
miRNA:   3'- gUCCGCGGCCaUGaCCG-GGAGCaaCU- -5'
29507 3' -59.3 NC_006151.1 + 54989 0.72 0.391934
Target:  5'- -cGGCGCCGGUGaaGGUgCUCGUcGGg -3'
miRNA:   3'- guCCGCGGCCAUgaCCGgGAGCAaCU- -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.