miRNA display CGI


Results 1 - 20 of 56 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
28166 3' -56.2 NC_005887.1 + 40752 0.66 0.597441
Target:  5'- --gAGGCGAuCGCCguuGGCgcgCCGcgCGCCg -3'
miRNA:   3'- guaUCCGCUcGCGG---UCGa--GGUa-GUGG- -5'
28166 3' -56.2 NC_005887.1 + 16741 0.66 0.58629
Target:  5'- --gAGuGCGAgaGCGCUGGCgaaGUCACCa -3'
miRNA:   3'- guaUC-CGCU--CGCGGUCGaggUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 24778 0.66 0.58629
Target:  5'- --cGGGCGuguucgucGCGCCGGUcacguaguUCCAguacgCGCCg -3'
miRNA:   3'- guaUCCGCu-------CGCGGUCG--------AGGUa----GUGG- -5'
28166 3' -56.2 NC_005887.1 + 26832 0.66 0.58629
Target:  5'- gCGUGcGCGAGCgggcgcgucuGCCGGUagCCGUUGCCg -3'
miRNA:   3'- -GUAUcCGCUCG----------CGGUCGa-GGUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 15727 0.66 0.58629
Target:  5'- --aAGGagcuGAcGCGCCAGCUgCAggACCa -3'
miRNA:   3'- guaUCCg---CU-CGCGGUCGAgGUagUGG- -5'
28166 3' -56.2 NC_005887.1 + 1590 0.66 0.585177
Target:  5'- ---cGGCG-GCGCgCGGCgcgCCAacggcgaUCGCCu -3'
miRNA:   3'- guauCCGCuCGCG-GUCGa--GGU-------AGUGG- -5'
28166 3' -56.2 NC_005887.1 + 40871 0.66 0.575178
Target:  5'- ----cGCGAGCGCC-GCacgCCGUCGgCg -3'
miRNA:   3'- guaucCGCUCGCGGuCGa--GGUAGUgG- -5'
28166 3' -56.2 NC_005887.1 + 26241 0.66 0.575178
Target:  5'- ---cGGCGcAGCGCCAccggaaagcGUUUCAcCACCg -3'
miRNA:   3'- guauCCGC-UCGCGGU---------CGAGGUaGUGG- -5'
28166 3' -56.2 NC_005887.1 + 12326 0.66 0.575178
Target:  5'- --aGGGUG-GCGUCGGCgcgUUCGUCACg -3'
miRNA:   3'- guaUCCGCuCGCGGUCG---AGGUAGUGg -5'
28166 3' -56.2 NC_005887.1 + 9620 0.66 0.564116
Target:  5'- ----cGCGAGCGCCGcGCUaCCc-CGCCg -3'
miRNA:   3'- guaucCGCUCGCGGU-CGA-GGuaGUGG- -5'
28166 3' -56.2 NC_005887.1 + 28059 0.66 0.564116
Target:  5'- --cAGGCGcuGCGCCAcccauGUUCgGUCACg -3'
miRNA:   3'- guaUCCGCu-CGCGGU-----CGAGgUAGUGg -5'
28166 3' -56.2 NC_005887.1 + 24556 0.66 0.563012
Target:  5'- ---cGGcCGGGCGCCcaugaucgccgucAGCUUCA-CACCu -3'
miRNA:   3'- guauCC-GCUCGCGG-------------UCGAGGUaGUGG- -5'
28166 3' -56.2 NC_005887.1 + 27242 0.66 0.56191
Target:  5'- ---cGGCGcaacugcaucgcGCGCCGGCcCgCGUCGCCa -3'
miRNA:   3'- guauCCGCu-----------CGCGGUCGaG-GUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 31438 0.66 0.55311
Target:  5'- --cAGGcCGGccgacgucaucuGCGCCGGCUgCAggugCACCg -3'
miRNA:   3'- guaUCC-GCU------------CGCGGUCGAgGUa---GUGG- -5'
28166 3' -56.2 NC_005887.1 + 32738 0.66 0.55311
Target:  5'- gGUAGcGCGGcgcucgcgugcGCGCCGGCgcgcgCCAUgcaGCCg -3'
miRNA:   3'- gUAUC-CGCU-----------CGCGGUCGa----GGUAg--UGG- -5'
28166 3' -56.2 NC_005887.1 + 9098 0.66 0.542169
Target:  5'- --cAGcGCGGGCaCCGGCgCCGUUACUc -3'
miRNA:   3'- guaUC-CGCUCGcGGUCGaGGUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 20978 0.66 0.542169
Target:  5'- ---uGGCGcuuGGCGCCAcGCUCg--CACCu -3'
miRNA:   3'- guauCCGC---UCGCGGU-CGAGguaGUGG- -5'
28166 3' -56.2 NC_005887.1 + 30870 0.66 0.542169
Target:  5'- ---uGGUccugaugccaGAGCGCgAGCUCgGUCACg -3'
miRNA:   3'- guauCCG----------CUCGCGgUCGAGgUAGUGg -5'
28166 3' -56.2 NC_005887.1 + 26627 0.67 0.531301
Target:  5'- gCAgcuGGC--GCGUCAGCUCCuUCACg -3'
miRNA:   3'- -GUau-CCGcuCGCGGUCGAGGuAGUGg -5'
28166 3' -56.2 NC_005887.1 + 2497 0.67 0.531301
Target:  5'- ---cGGCGAGCccgGCCuGCUCgugCACCc -3'
miRNA:   3'- guauCCGCUCG---CGGuCGAGguaGUGG- -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.