miRNA display CGI


Results 1 - 20 of 31 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
23458 3' -56.7 NC_005259.1 + 32897 0.65 0.734218
Target:  5'- -cGggGGCGAgggUGAgccacccggcccgcUCGGGCGCGGcgGUa -3'
miRNA:   3'- gaCuaCCGCU---GCU--------------AGUCCGCGCCa-CG- -5'
23458 3' -56.7 NC_005259.1 + 67582 0.68 0.578557
Target:  5'- aUGAUGauCGACGcGUCGGGCGCGagacGUGUu -3'
miRNA:   3'- gACUACc-GCUGC-UAGUCCGCGC----CACG- -5'
23458 3' -56.7 NC_005259.1 + 54508 0.68 0.589169
Target:  5'- --cAUGGCGGCGAUguGGgGUGGcggGUc -3'
miRNA:   3'- gacUACCGCUGCUAguCCgCGCCa--CG- -5'
23458 3' -56.7 NC_005259.1 + 60344 0.68 0.589169
Target:  5'- ----aGGCGGCGAUCAGGuCGaGGcccUGCc -3'
miRNA:   3'- gacuaCCGCUGCUAGUCC-GCgCC---ACG- -5'
23458 3' -56.7 NC_005259.1 + 50494 0.68 0.599815
Target:  5'- -cGAUGaGcCGGuCGAUguGG-GCGGUGCg -3'
miRNA:   3'- gaCUAC-C-GCU-GCUAguCCgCGCCACG- -5'
23458 3' -56.7 NC_005259.1 + 23261 0.67 0.621176
Target:  5'- -cGGUGGCcACcaugagcaccaaGAcCGGGCGCGGUGg -3'
miRNA:   3'- gaCUACCGcUG------------CUaGUCCGCGCCACg -5'
23458 3' -56.7 NC_005259.1 + 3167 0.67 0.621176
Target:  5'- gUGAUgcccGGCGAUGucaAGGuCGuCGGUGCg -3'
miRNA:   3'- gACUA----CCGCUGCuagUCC-GC-GCCACG- -5'
23458 3' -56.7 NC_005259.1 + 62699 0.67 0.642574
Target:  5'- -cGGUGucccaucCGGCGAUCAGGCGgGGgaucucGCu -3'
miRNA:   3'- gaCUACc------GCUGCUAGUCCGCgCCa-----CG- -5'
23458 3' -56.7 NC_005259.1 + 55105 0.67 0.653264
Target:  5'- -cGAUGGCGGCGAaaaaugCAccGGCuGCcGUGCc -3'
miRNA:   3'- gaCUACCGCUGCUa-----GU--CCG-CGcCACG- -5'
23458 3' -56.7 NC_005259.1 + 66901 0.68 0.578557
Target:  5'- gUGAacGGCGGuagaucCGG-CAGcGCGCGGUGCu -3'
miRNA:   3'- gACUa-CCGCU------GCUaGUC-CGCGCCACG- -5'
23458 3' -56.7 NC_005259.1 + 58762 0.69 0.536601
Target:  5'- ----cGGCGaACGAcgcugCGGGCGCuGUGCg -3'
miRNA:   3'- gacuaCCGC-UGCUa----GUCCGCGcCACG- -5'
23458 3' -56.7 NC_005259.1 + 26377 0.69 0.516014
Target:  5'- -cGGUGGCGagccuguugcucGCGAUuccgacgcCGGGCGCGGcggUGCc -3'
miRNA:   3'- gaCUACCGC------------UGCUA--------GUCCGCGCC---ACG- -5'
23458 3' -56.7 NC_005259.1 + 66191 0.74 0.288699
Target:  5'- gCUGccGGUGcaguACgGGUCAGGCGCGGUcGCg -3'
miRNA:   3'- -GACuaCCGC----UG-CUAGUCCGCGCCA-CG- -5'
23458 3' -56.7 NC_005259.1 + 14651 0.73 0.333433
Target:  5'- -cGAUGGCGugGGcucagcccgacUCGGGC-CGcGUGCa -3'
miRNA:   3'- gaCUACCGCugCU-----------AGUCCGcGC-CACG- -5'
23458 3' -56.7 NC_005259.1 + 53729 0.72 0.365971
Target:  5'- gCUGAUGGUGAUGucgcCGGGUGUccacucGGUGCc -3'
miRNA:   3'- -GACUACCGCUGCua--GUCCGCG------CCACG- -5'
23458 3' -56.7 NC_005259.1 + 41634 0.71 0.391774
Target:  5'- aUGGUGGCGGugcCGGUCugcGGGCGCucGGUGa -3'
miRNA:   3'- gACUACCGCU---GCUAG---UCCGCG--CCACg -5'
23458 3' -56.7 NC_005259.1 + 60566 0.71 0.399742
Target:  5'- -cGGUGcCGACGGUCAGGCgGCccacggcgagucgGGUGCc -3'
miRNA:   3'- gaCUACcGCUGCUAGUCCG-CG-------------CCACG- -5'
23458 3' -56.7 NC_005259.1 + 68682 0.7 0.469967
Target:  5'- -gGAUGGCcuucucgaugaucgaGGCGggCAGcGCGuCGGUGCc -3'
miRNA:   3'- gaCUACCG---------------CUGCuaGUC-CGC-GCCACG- -5'
23458 3' -56.7 NC_005259.1 + 28339 0.7 0.475858
Target:  5'- ---uUGGCGGCGAaaUCgAGGCcaCGGUGCu -3'
miRNA:   3'- gacuACCGCUGCU--AG-UCCGc-GCCACG- -5'
23458 3' -56.7 NC_005259.1 + 58319 0.7 0.495752
Target:  5'- uUGAUGGUGAUcucgggcagcgaGAUCAGGU-CGGUGg -3'
miRNA:   3'- gACUACCGCUG------------CUAGUCCGcGCCACg -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.