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
24726 3' -58.1 NC_005264.1 + 156699 0.66 0.811815
Target:  5'- cGCgAGAcCCAGGaCG-GGCGGUGCUu- -3'
miRNA:   3'- uCG-UCUaGGUCC-GCuUCGCCACGGuu -5'
24726 3' -58.1 NC_005264.1 + 12768 0.66 0.793947
Target:  5'- gGGCAGcgCCGGGCacaacGAuGCGGUcauGCCu- -3'
miRNA:   3'- -UCGUCuaGGUCCG-----CUuCGCCA---CGGuu -5'
24726 3' -58.1 NC_005264.1 + 160446 0.66 0.793947
Target:  5'- aGGCAGGccggcgccgggcUCCugcGGGCGAcGGCcacucGGUGCCAGg -3'
miRNA:   3'- -UCGUCU------------AGG---UCCGCU-UCG-----CCACGGUU- -5'
24726 3' -58.1 NC_005264.1 + 41419 0.66 0.793947
Target:  5'- aGGCAGGccggcgccgggcUCCugcGGGCGAcGGCcacucGGUGCCAGg -3'
miRNA:   3'- -UCGUCU------------AGG---UCCGCU-UCG-----CCACGGUU- -5'
24726 3' -58.1 NC_005264.1 + 79421 0.66 0.793947
Target:  5'- cGGCGGAacCCAGcGUG-GGCGGUGCgGGg -3'
miRNA:   3'- -UCGUCUa-GGUC-CGCuUCGCCACGgUU- -5'
24726 3' -58.1 NC_005264.1 + 96863 0.66 0.784787
Target:  5'- uGCAGAgacaCUAGGCGcGAGCGGaggauacaaGCCAGa -3'
miRNA:   3'- uCGUCUa---GGUCCGC-UUCGCCa--------CGGUU- -5'
24726 3' -58.1 NC_005264.1 + 48385 0.66 0.77549
Target:  5'- cGGUAGAcUgGGGCGucgGGCGGcgGCCAGg -3'
miRNA:   3'- -UCGUCUaGgUCCGCu--UCGCCa-CGGUU- -5'
24726 3' -58.1 NC_005264.1 + 37113 0.66 0.77549
Target:  5'- gGGCAGGaCgaGGGCGAGGCGGccgucucgGCCu- -3'
miRNA:   3'- -UCGUCUaGg-UCCGCUUCGCCa-------CGGuu -5'
24726 3' -58.1 NC_005264.1 + 31007 0.66 0.77549
Target:  5'- cGCGGGagaucaucucUCUGGGCGA--CGGUGCCGc -3'
miRNA:   3'- uCGUCU----------AGGUCCGCUucGCCACGGUu -5'
24726 3' -58.1 NC_005264.1 + 150034 0.66 0.77549
Target:  5'- cGCGGGagaucaucucUCUGGGCGA--CGGUGCCGc -3'
miRNA:   3'- uCGUCU----------AGGUCCGCUucGCCACGGUu -5'
24726 3' -58.1 NC_005264.1 + 156140 0.66 0.77549
Target:  5'- gGGCAGGaCgaGGGCGAGGCGGccgucucgGCCu- -3'
miRNA:   3'- -UCGUCUaGg-UCCGCUUCGCCa-------CGGuu -5'
24726 3' -58.1 NC_005264.1 + 126284 0.66 0.766064
Target:  5'- uGGCGGAggucggcgCCAGGaCGAagacGGCGGgGCCu- -3'
miRNA:   3'- -UCGUCUa-------GGUCC-GCU----UCGCCaCGGuu -5'
24726 3' -58.1 NC_005264.1 + 7257 0.66 0.766064
Target:  5'- uGGCGGAggucggcgCCAGGaCGAagacGGCGGgGCCu- -3'
miRNA:   3'- -UCGUCUa-------GGUCC-GCU----UCGCCaCGGuu -5'
24726 3' -58.1 NC_005264.1 + 157008 0.67 0.756518
Target:  5'- cGCGG--CCAGGCG-AGUGGcgGCCAc -3'
miRNA:   3'- uCGUCuaGGUCCGCuUCGCCa-CGGUu -5'
24726 3' -58.1 NC_005264.1 + 37981 0.67 0.756518
Target:  5'- cGCGG--CCAGGCG-AGUGGcgGCCAc -3'
miRNA:   3'- uCGUCuaGGUCCGCuUCGCCa-CGGUu -5'
24726 3' -58.1 NC_005264.1 + 144542 0.67 0.707313
Target:  5'- gGGCGGGUCCuAGGCauucccccugGggGCGGUacuggGCCc- -3'
miRNA:   3'- -UCGUCUAGG-UCCG----------CuuCGCCA-----CGGuu -5'
24726 3' -58.1 NC_005264.1 + 123499 0.67 0.707313
Target:  5'- cGCGGuugCUGGGCGAugugcucGCGGUGuCCAAg -3'
miRNA:   3'- uCGUCua-GGUCCGCUu------CGCCAC-GGUU- -5'
24726 3' -58.1 NC_005264.1 + 155272 0.68 0.697243
Target:  5'- gGGCGGAgCCGcacguGGCgGAAGCGGguagGCCGu -3'
miRNA:   3'- -UCGUCUaGGU-----CCG-CUUCGCCa---CGGUu -5'
24726 3' -58.1 NC_005264.1 + 36245 0.68 0.697243
Target:  5'- gGGCGGAgCCGcacguGGCgGAAGCGGguagGCCGu -3'
miRNA:   3'- -UCGUCUaGGU-----CCG-CUUCGCCa---CGGUu -5'
24726 3' -58.1 NC_005264.1 + 52317 0.69 0.646246
Target:  5'- aGGCAGGUCCAGGCGu--CGGUuCuCAGg -3'
miRNA:   3'- -UCGUCUAGGUCCGCuucGCCAcG-GUU- -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.