miRNA display CGI


Results 1 - 20 of 128 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
29494 3' -58.5 NC_006151.1 + 20133 0.66 0.80773
Target:  5'- uGGGGGgcGGGcgccGCGGGGGcGGcGCGu -3'
miRNA:   3'- uCUCUCuuCUCua--CGCCCCCuCC-CGC- -5'
29494 3' -58.5 NC_006151.1 + 8603 0.66 0.80773
Target:  5'- cGAGuauGggGGccGGUGCGGGuGuGAGGGUc -3'
miRNA:   3'- uCUCu--CuuCU--CUACGCCC-C-CUCCCGc -5'
29494 3' -58.5 NC_006151.1 + 4976 0.66 0.798934
Target:  5'- cGAGAGGugguuguuguGGAGcgGCGcuuccugcgcGGGGGccGGGCGg -3'
miRNA:   3'- uCUCUCU----------UCUCuaCGC----------CCCCU--CCCGC- -5'
29494 3' -58.5 NC_006151.1 + 27960 0.66 0.798934
Target:  5'- gGGAGGGAGGGGGgac-GGGGAGGaGUu -3'
miRNA:   3'- -UCUCUCUUCUCUacgcCCCCUCC-CGc -5'
29494 3' -58.5 NC_006151.1 + 9538 0.66 0.798046
Target:  5'- gGGGGGGAaagaagaagaaacGGGGAaGCGGGGGAaGGa- -3'
miRNA:   3'- -UCUCUCU-------------UCUCUaCGCCCCCUcCCgc -5'
29494 3' -58.5 NC_006151.1 + 66838 0.66 0.78999
Target:  5'- gGGGGGGAAGAGGagaagGaCGaGaGGGccGGGGCGg -3'
miRNA:   3'- -UCUCUCUUCUCUa----C-GC-C-CCC--UCCCGC- -5'
29494 3' -58.5 NC_006151.1 + 42342 0.66 0.78999
Target:  5'- cGGGAGuGGAGcgGa-GGGGAGGGg- -3'
miRNA:   3'- uCUCUCuUCUCuaCgcCCCCUCCCgc -5'
29494 3' -58.5 NC_006151.1 + 29613 0.66 0.789088
Target:  5'- cGGGGGcugguguGGGAGGaGUGGGGGAauuggGGGUGg -3'
miRNA:   3'- uCUCUC-------UUCUCUaCGCCCCCU-----CCCGC- -5'
29494 3' -58.5 NC_006151.1 + 43246 0.66 0.788185
Target:  5'- cGGGGAGugcgugcggguguGGGGUGCucucgcucugcuuugGGGGGGGGGUc -3'
miRNA:   3'- -UCUCUCuu-----------CUCUACG---------------CCCCCUCCCGc -5'
29494 3' -58.5 NC_006151.1 + 142470 0.66 0.780908
Target:  5'- gGGGGAacGAGGGGGU-UGGGGGAaaGGGgGg -3'
miRNA:   3'- -UCUCU--CUUCUCUAcGCCCCCU--CCCgC- -5'
29494 3' -58.5 NC_006151.1 + 142366 0.66 0.780908
Target:  5'- gGGGGAacGAGGGGGU-UGGGGGAaaGGGgGg -3'
miRNA:   3'- -UCUCU--CUUCUCUAcGCCCCCU--CCCgC- -5'
29494 3' -58.5 NC_006151.1 + 142418 0.66 0.780908
Target:  5'- gGGGGAacGAGGGGGU-UGGGGGAaaGGGgGg -3'
miRNA:   3'- -UCUCU--CUUCUCUAcGCCCCCU--CCCgC- -5'
29494 3' -58.5 NC_006151.1 + 133613 0.66 0.780908
Target:  5'- cGAGGGGcgucuGGGGGUcGCGGcGGccGGGGCGg -3'
miRNA:   3'- uCUCUCU-----UCUCUA-CGCCcCC--UCCCGC- -5'
29494 3' -58.5 NC_006151.1 + 8469 0.66 0.775395
Target:  5'- cGGGAGGAcGGAUggucggucggacgggGCGggcGGGGAGGGUGu -3'
miRNA:   3'- uCUCUCUUcUCUA---------------CGC---CCCCUCCCGC- -5'
29494 3' -58.5 NC_006151.1 + 27380 0.67 0.762359
Target:  5'- cGAcGGgcGAGAacgGC-GGGGAGGGCa -3'
miRNA:   3'- uCUcUCuuCUCUa--CGcCCCCUCCCGc -5'
29494 3' -58.5 NC_006151.1 + 15796 0.67 0.762359
Target:  5'- cGAG-GAAGGGGagGaCGGGGGGGaagacGGCGa -3'
miRNA:   3'- uCUCuCUUCUCUa-C-GCCCCCUC-----CCGC- -5'
29494 3' -58.5 NC_006151.1 + 10093 0.67 0.752912
Target:  5'- cGGAG-GAAGgcGGGUGCGGaGGAGGaaGCGc -3'
miRNA:   3'- -UCUCuCUUC--UCUACGCCcCCUCC--CGC- -5'
29494 3' -58.5 NC_006151.1 + 135085 0.67 0.752912
Target:  5'- --cGGGcGGGGGcgGCGGGGccGGGCGg -3'
miRNA:   3'- ucuCUC-UUCUCuaCGCCCCcuCCCGC- -5'
29494 3' -58.5 NC_006151.1 + 9503 0.67 0.752912
Target:  5'- gGGAGAGcGGGGcGUGUGGGGaaggaaGAGGGg- -3'
miRNA:   3'- -UCUCUCuUCUC-UACGCCCC------CUCCCgc -5'
29494 3' -58.5 NC_006151.1 + 1784 0.67 0.752912
Target:  5'- aGGAGAgGAGGAGGgccaccggGCcGGGGAGgcaGGCGc -3'
miRNA:   3'- -UCUCU-CUUCUCUa-------CGcCCCCUC---CCGC- -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.