miRNA display CGI


Results 1 - 18 of 18 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
25026 3' -57.7 NC_005336.1 + 138888 0.66 0.828525
Target:  5'- uUUCGGAGGAGc-GcGGAG-GGCGGGu -3'
miRNA:   3'- -AAGCCUCCUCucCuCCUCuUCGCCUc -5'
25026 3' -57.7 NC_005336.1 + 139104 0.66 0.828525
Target:  5'- uUUCGGAGGAGc-GcGGAG-GGCGGGu -3'
miRNA:   3'- -AAGCCUCCUCucCuCCUCuUCGCCUc -5'
25026 3' -57.7 NC_005336.1 + 139104 0.66 0.828525
Target:  5'- uUUCGGAGGAGc-GcGGAG-GGCGGGu -3'
miRNA:   3'- -AAGCCUCCUCucCuCCUCuUCGCCUc -5'
25026 3' -57.7 NC_005336.1 + 138888 0.66 0.828525
Target:  5'- uUUCGGAGGAGc-GcGGAG-GGCGGGu -3'
miRNA:   3'- -AAGCCUCCUCucCuCCUCuUCGCCUc -5'
25026 3' -57.7 NC_005336.1 + 32756 0.67 0.765587
Target:  5'- -gUGGuGGAGAGGA--AGGAGCGGuGc -3'
miRNA:   3'- aaGCCuCCUCUCCUccUCUUCGCCuC- -5'
25026 3' -57.7 NC_005336.1 + 25214 0.67 0.762738
Target:  5'- cUCGGGGGAGAgucccaccuccgcuGGuGGAcGuuGUGGAGa -3'
miRNA:   3'- aAGCCUCCUCU--------------CCuCCU-CuuCGCCUC- -5'
25026 3' -57.7 NC_005336.1 + 13276 0.67 0.756048
Target:  5'- -cCGGGGGAuGuGGGGGuuucgAGAAgcGCGGAGa -3'
miRNA:   3'- aaGCCUCCU-CuCCUCC-----UCUU--CGCCUC- -5'
25026 3' -57.7 NC_005336.1 + 12843 0.67 0.756048
Target:  5'- --aGGAGuuGAGGGGGAGAaaaacAGCGGu- -3'
miRNA:   3'- aagCCUCcuCUCCUCCUCU-----UCGCCuc -5'
25026 3' -57.7 NC_005336.1 + 32686 0.67 0.756048
Target:  5'- gUCGGGGGugacgauGAGGAuGcAGGAGCuGGAGa -3'
miRNA:   3'- aAGCCUCCu------CUCCUcC-UCUUCG-CCUC- -5'
25026 3' -57.7 NC_005336.1 + 18596 0.67 0.735669
Target:  5'- gUCGGAGGAGuGucugcucuuuuccGAGGGGcAGCGGu- -3'
miRNA:   3'- aAGCCUCCUCuC-------------CUCCUCuUCGCCuc -5'
25026 3' -57.7 NC_005336.1 + 23610 0.67 0.726808
Target:  5'- aUUUGGAGGGcGGGGuGGGGu--CGGAGg -3'
miRNA:   3'- -AAGCCUCCU-CUCCuCCUCuucGCCUC- -5'
25026 3' -57.7 NC_005336.1 + 93438 0.69 0.63564
Target:  5'- -cUGGAGGAGgcgcggcggcGGGAGcuAGAAGCGGAa -3'
miRNA:   3'- aaGCCUCCUC----------UCCUCc-UCUUCGCCUc -5'
25026 3' -57.7 NC_005336.1 + 114865 0.69 0.615132
Target:  5'- -cCGGuGGAGAagGcGAGGAGGAG-GGAGa -3'
miRNA:   3'- aaGCCuCCUCU--C-CUCCUCUUCgCCUC- -5'
25026 3' -57.7 NC_005336.1 + 92720 0.7 0.574329
Target:  5'- -aCGGAGGAGAuGGGGaucuugaacGAGAAGCGcucGAGg -3'
miRNA:   3'- aaGCCUCCUCU-CCUC---------CUCUUCGC---CUC- -5'
25026 3' -57.7 NC_005336.1 + 3 0.71 0.503761
Target:  5'- -gCGGAccaGGAGuuccugcGGGAGGAGuuacAGCGGAGg -3'
miRNA:   3'- aaGCCU---CCUC-------UCCUCCUCu---UCGCCUC- -5'
25026 3' -57.7 NC_005336.1 + 3 0.71 0.503761
Target:  5'- -gCGGAccaGGAGuuccugcGGGAGGAGuuacAGCGGAGg -3'
miRNA:   3'- aaGCCU---CCUC-------UCCUCCUCu---UCGCCUC- -5'
25026 3' -57.7 NC_005336.1 + 138989 1.06 0.002809
Target:  5'- uUUCGGAGGAGAGGAGGAGAAGCGGAGu -3'
miRNA:   3'- -AAGCCUCCUCUCCUCCUCUUCGCCUC- -5'
25026 3' -57.7 NC_005336.1 + 138989 1.06 0.002809
Target:  5'- uUUCGGAGGAGAGGAGGAGAAGCGGAGu -3'
miRNA:   3'- -AAGCCUCCUCUCCUCCUCUUCGCCUC- -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.