miRNA display CGI


Results 1 - 20 of 65 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
28014 5' -52.5 NC_005887.1 + 296 0.69 0.609274
Target:  5'- cGUgGCGUgAUCA-GCGAGGCCGcggUGCg -3'
miRNA:   3'- -CAgCGCG-UAGUcCGUUUCGGCua-ACG- -5'
28014 5' -52.5 NC_005887.1 + 504 0.7 0.51862
Target:  5'- -aCGaGCAUCAGGCGccGCCaGAUcGCg -3'
miRNA:   3'- caGCgCGUAGUCCGUuuCGG-CUAaCG- -5'
28014 5' -52.5 NC_005887.1 + 1715 0.66 0.767351
Target:  5'- -gCGCGCucGUCAGuGCcugucuuGCCGAUgUGCg -3'
miRNA:   3'- caGCGCG--UAGUC-CGuuu----CGGCUA-ACG- -5'
28014 5' -52.5 NC_005887.1 + 2306 0.67 0.70119
Target:  5'- -aCG-GUAUCGGGCGuAGGCCGGccGCc -3'
miRNA:   3'- caGCgCGUAGUCCGU-UUCGGCUaaCG- -5'
28014 5' -52.5 NC_005887.1 + 2687 0.66 0.777919
Target:  5'- -gUGCGCGUgaagcguaCGGGCGGcaagcGGCCGAgccGCg -3'
miRNA:   3'- caGCGCGUA--------GUCCGUU-----UCGGCUaa-CG- -5'
28014 5' -52.5 NC_005887.1 + 2809 0.7 0.55214
Target:  5'- cGUCGCGCGgauUgGGGUAcaGAGCCGGcgccaguuggUGCg -3'
miRNA:   3'- -CAGCGCGU---AgUCCGU--UUCGGCUa---------ACG- -5'
28014 5' -52.5 NC_005887.1 + 2889 0.66 0.788321
Target:  5'- -aCGCGCuuuUCAGGCAcgcGGCCc-UUGUc -3'
miRNA:   3'- caGCGCGu--AGUCCGUu--UCGGcuAACG- -5'
28014 5' -52.5 NC_005887.1 + 3023 0.74 0.314927
Target:  5'- --aGCGCcgCGGGCAAAGCCa--UGCu -3'
miRNA:   3'- cagCGCGuaGUCCGUUUCGGcuaACG- -5'
28014 5' -52.5 NC_005887.1 + 4149 0.7 0.55214
Target:  5'- -gCGCGCGacuggcUCGGGUAuuGAGCCGGccaUGCu -3'
miRNA:   3'- caGCGCGU------AGUCCGU--UUCGGCUa--ACG- -5'
28014 5' -52.5 NC_005887.1 + 5506 0.66 0.745769
Target:  5'- cGUCGCGaucCAGcGCAAGGCUGucgaacUGCu -3'
miRNA:   3'- -CAGCGCguaGUC-CGUUUCGGCua----ACG- -5'
28014 5' -52.5 NC_005887.1 + 5836 0.67 0.70119
Target:  5'- gGUCGCGaa--GGGCGAAGCgGA--GCu -3'
miRNA:   3'- -CAGCGCguagUCCGUUUCGgCUaaCG- -5'
28014 5' -52.5 NC_005887.1 + 8345 0.67 0.72368
Target:  5'- uUCGCGUgccGUCuGGC--GGCCGAagccUGCg -3'
miRNA:   3'- cAGCGCG---UAGuCCGuuUCGGCUa---ACG- -5'
28014 5' -52.5 NC_005887.1 + 9570 0.66 0.777919
Target:  5'- -gCGCGCcgAUCcuGCGcacGAGCCGGcUGCa -3'
miRNA:   3'- caGCGCG--UAGucCGU---UUCGGCUaACG- -5'
28014 5' -52.5 NC_005887.1 + 11098 0.7 0.540886
Target:  5'- cGUgGCGCAUCGGcuggugcgcGCGAAGCUGGccgagGCg -3'
miRNA:   3'- -CAgCGCGUAGUC---------CGUUUCGGCUaa---CG- -5'
28014 5' -52.5 NC_005887.1 + 11470 0.72 0.413845
Target:  5'- cUCGCGaacaAUCAGGCAGAGCaGGUcuacGCg -3'
miRNA:   3'- cAGCGCg---UAGUCCGUUUCGgCUAa---CG- -5'
28014 5' -52.5 NC_005887.1 + 14072 0.67 0.70119
Target:  5'- -gCGCGCGcUC-GGCGu-GCCGAUgaUGCu -3'
miRNA:   3'- caGCGCGU-AGuCCGUuuCGGCUA--ACG- -5'
28014 5' -52.5 NC_005887.1 + 14194 0.67 0.712478
Target:  5'- -aCGCGCuGUCGGGCGcGGCCucgGAcaggGCg -3'
miRNA:   3'- caGCGCG-UAGUCCGUuUCGG---CUaa--CG- -5'
28014 5' -52.5 NC_005887.1 + 14519 0.69 0.609274
Target:  5'- gGUC-CGCuugCAGGCGcGGCCGucgGCg -3'
miRNA:   3'- -CAGcGCGua-GUCCGUuUCGGCuaaCG- -5'
28014 5' -52.5 NC_005887.1 + 14701 0.71 0.485935
Target:  5'- cGUCGCGg--CGGGCG-GGCCGGgcGCg -3'
miRNA:   3'- -CAGCGCguaGUCCGUuUCGGCUaaCG- -5'
28014 5' -52.5 NC_005887.1 + 14993 0.71 0.454263
Target:  5'- -cCGCGCAggccgCAGGCGugccgcccGAGCUGAU-GCu -3'
miRNA:   3'- caGCGCGUa----GUCCGU--------UUCGGCUAaCG- -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.