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 + 24778 0.66 0.58629
Target:  5'- --cGGGCGuguucgucGCGCCGGUcacguaguUCCAguacgCGCCg -3'
miRNA:   3'- guaUCCGCu-------CGCGGUCG--------AGGUa----GUGG- -5'
28166 3' -56.2 NC_005887.1 + 18807 0.71 0.297846
Target:  5'- --cGGGCG-GCGUCAGCguacgcugCCAgcUCACCc -3'
miRNA:   3'- guaUCCGCuCGCGGUCGa-------GGU--AGUGG- -5'
28166 3' -56.2 NC_005887.1 + 21065 0.73 0.229469
Target:  5'- uGUGGGCGA-CGCCAGCagCgCAUaCGCCg -3'
miRNA:   3'- gUAUCCGCUcGCGGUCGa-G-GUA-GUGG- -5'
28166 3' -56.2 NC_005887.1 + 14295 0.77 0.11453
Target:  5'- aCAUGGGUGgcgcAGCGCCuGCUCgAUCACg -3'
miRNA:   3'- -GUAUCCGC----UCGCGGuCGAGgUAGUGg -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 + 31438 0.66 0.55311
Target:  5'- --cAGGcCGGccgacgucaucuGCGCCGGCUgCAggugCACCg -3'
miRNA:   3'- guaUCC-GCU------------CGCGGUCGAgGUa---GUGG- -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 + 27703 0.67 0.478291
Target:  5'- ---cGGCGAcgggcagcaccGCGCCGGCUgCCGUgagcgCGCCc -3'
miRNA:   3'- guauCCGCU-----------CGCGGUCGA-GGUA-----GUGG- -5'
28166 3' -56.2 NC_005887.1 + 28975 0.71 0.313285
Target:  5'- ---cGGCcuucAGCGCgAGCgCCAUCGCCg -3'
miRNA:   3'- guauCCGc---UCGCGgUCGaGGUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 744 0.68 0.437825
Target:  5'- --cGGGCc-GCGCCGGCcgCCG-CACCu -3'
miRNA:   3'- guaUCCGcuCGCGGUCGa-GGUaGUGG- -5'
28166 3' -56.2 NC_005887.1 + 37579 0.67 0.478291
Target:  5'- ---cGGCuGGCGUCAGCUuCCcgCGCUc -3'
miRNA:   3'- guauCCGcUCGCGGUCGA-GGuaGUGG- -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 + 30955 0.69 0.399393
Target:  5'- ---uGGCG-GCGCCGGCcgCCAgCGCUc -3'
miRNA:   3'- guauCCGCuCGCGGUCGa-GGUaGUGG- -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 + 23442 0.67 0.499204
Target:  5'- ---cGGUGAGCGCUgcgGGCUgCCggUGCCg -3'
miRNA:   3'- guauCCGCUCGCGG---UCGA-GGuaGUGG- -5'
28166 3' -56.2 NC_005887.1 + 11399 0.7 0.363188
Target:  5'- aCGUAcGCGGGCGCCGa---CAUCACCg -3'
miRNA:   3'- -GUAUcCGCUCGCGGUcgagGUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 382 0.71 0.29035
Target:  5'- gAUAGGCGAGCGCgCcGCgcaCG-CACCa -3'
miRNA:   3'- gUAUCCGCUCGCG-GuCGag-GUaGUGG- -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 + 9620 0.66 0.564116
Target:  5'- ----cGCGAGCGCCGcGCUaCCc-CGCCg -3'
miRNA:   3'- guaucCGCUCGCGGU-CGA-GGuaGUGG- -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.