miRNA display CGI


Results 1 - 20 of 30 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
13033 3' -53.5 NC_003390.1 + 501 0.75 0.255426
Target:  5'- --cCGCuaccaAGCCgAGCAGCGcaaGCAGCAGCu -3'
miRNA:   3'- cuuGCG-----UCGGgUUGUCGU---UGUCGUCG- -5'
13033 3' -53.5 NC_003390.1 + 570 0.7 0.463676
Target:  5'- -uGCGCuGCUCGGCuuGGUAGCGGCGGa -3'
miRNA:   3'- cuUGCGuCGGGUUG--UCGUUGUCGUCg -5'
13033 3' -53.5 NC_003390.1 + 1066 0.66 0.698378
Target:  5'- aGACGgucaacuuCAGCCCGAUAaacgaacuGCuugGCAGCAGCc -3'
miRNA:   3'- cUUGC--------GUCGGGUUGU--------CGu--UGUCGUCG- -5'
13033 3' -53.5 NC_003390.1 + 1545 0.73 0.323222
Target:  5'- cAGC-CGGCCCGGCAGgGGCAGCAc- -3'
miRNA:   3'- cUUGcGUCGGGUUGUCgUUGUCGUcg -5'
13033 3' -53.5 NC_003390.1 + 1778 0.67 0.641445
Target:  5'- -cACGUuGCUCAAUAcuGCAACGGCuGGCg -3'
miRNA:   3'- cuUGCGuCGGGUUGU--CGUUGUCG-UCG- -5'
13033 3' -53.5 NC_003390.1 + 5575 0.75 0.248658
Target:  5'- --gUGuCAGCCaCAGCAGaGGCAGCAGCg -3'
miRNA:   3'- cuuGC-GUCGG-GUUGUCgUUGUCGUCG- -5'
13033 3' -53.5 NC_003390.1 + 7480 0.74 0.291542
Target:  5'- ---aGCuGCUCGGCAGCcucaccccuAGCAGCAGCa -3'
miRNA:   3'- cuugCGuCGGGUUGUCG---------UUGUCGUCG- -5'
13033 3' -53.5 NC_003390.1 + 9324 0.68 0.618524
Target:  5'- uAGCGaucuGUCCAGCaaucuccuuAGCAGCAGCAGa -3'
miRNA:   3'- cUUGCgu--CGGGUUG---------UCGUUGUCGUCg -5'
13033 3' -53.5 NC_003390.1 + 16986 0.73 0.331533
Target:  5'- --cCGCAGCUCAAUGGCGAUGGCcuGCc -3'
miRNA:   3'- cuuGCGUCGGGUUGUCGUUGUCGu-CG- -5'
13033 3' -53.5 NC_003390.1 + 21483 0.74 0.272283
Target:  5'- aGugGCacaGGCCCAACaacagauggcuuuccAGCAGCAGCAGg -3'
miRNA:   3'- cUugCG---UCGGGUUG---------------UCGUUGUCGUCg -5'
13033 3' -53.5 NC_003390.1 + 23434 0.72 0.3574
Target:  5'- ---aGCAGCCUGAa--CAACAGCAGCu -3'
miRNA:   3'- cuugCGUCGGGUUgucGUUGUCGUCG- -5'
13033 3' -53.5 NC_003390.1 + 24227 0.69 0.547037
Target:  5'- ---aGCAGCaCCAAUGGUgaccaggcccucagGGCGGCGGCu -3'
miRNA:   3'- cuugCGUCG-GGUUGUCG--------------UUGUCGUCG- -5'
13033 3' -53.5 NC_003390.1 + 24746 0.68 0.628837
Target:  5'- aAAUGguGCCCAAUcuacugGGUGggaucucGCAGCAGCc -3'
miRNA:   3'- cUUGCguCGGGUUG------UCGU-------UGUCGUCG- -5'
13033 3' -53.5 NC_003390.1 + 25824 0.75 0.262343
Target:  5'- aGAACGCucGUCgAGCA-CAGCAGCAGCu -3'
miRNA:   3'- -CUUGCGu-CGGgUUGUcGUUGUCGUCG- -5'
13033 3' -53.5 NC_003390.1 + 26932 0.66 0.742741
Target:  5'- gGAugGCGGCCUcAUGGCGGCcuugaccuGCuGCu -3'
miRNA:   3'- -CUugCGUCGGGuUGUCGUUGu-------CGuCG- -5'
13033 3' -53.5 NC_003390.1 + 27034 1.13 0.000528
Target:  5'- aGAACGCAGCCCAACAGCAACAGCAGCa -3'
miRNA:   3'- -CUUGCGUCGGGUUGUCGUUGUCGUCG- -5'
13033 3' -53.5 NC_003390.1 + 27309 0.68 0.584265
Target:  5'- cGGCGgAGCUUGucuuCAGCuuCAGCGGCg -3'
miRNA:   3'- cUUGCgUCGGGUu---GUCGuuGUCGUCG- -5'
13033 3' -53.5 NC_003390.1 + 30660 0.68 0.629983
Target:  5'- aGACGUAGCCUGACAGCugacguACAccGCAa- -3'
miRNA:   3'- cUUGCGUCGGGUUGUCGu-----UGU--CGUcg -5'
13033 3' -53.5 NC_003390.1 + 30916 0.68 0.629983
Target:  5'- ---gGCGGCCauagccuGCAGCAGcCGGUGGCu -3'
miRNA:   3'- cuugCGUCGGgu-----UGUCGUU-GUCGUCG- -5'
13033 3' -53.5 NC_003390.1 + 33557 0.71 0.453327
Target:  5'- uGAUGCAGCuaucaCCAACgAGguGCAGaCAGCa -3'
miRNA:   3'- cUUGCGUCG-----GGUUG-UCguUGUC-GUCG- -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.