miRNA display CGI


Results 1 - 16 of 16 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
11925 5' -63.2 NC_003278.1 + 31199 0.66 0.258909
Target:  5'- cUGGG-CGcCAGGCGGGUguuuguccgcugggCCaGGGCGGc -3'
miRNA:   3'- cAUCCgGCaGUUCGCCCG--------------GG-CCCGCC- -5'
11925 5' -63.2 NC_003278.1 + 21536 0.66 0.254403
Target:  5'- -cGGGCCGUCAGGCugucgccGGCCUcGaCGGg -3'
miRNA:   3'- caUCCGGCAGUUCGc------CCGGGcCcGCC- -5'
11925 5' -63.2 NC_003278.1 + 14101 0.67 0.218387
Target:  5'- -cAGGCCGU--GGCGGGCCaggauguccGGCGu -3'
miRNA:   3'- caUCCGGCAguUCGCCCGGgc-------CCGCc -5'
11925 5' -63.2 NC_003278.1 + 9589 0.67 0.207387
Target:  5'- -aGGGCCGUgAuggugccggccuGGCGGGaaagCUGGGCGu -3'
miRNA:   3'- caUCCGGCAgU------------UCGCCCg---GGCCCGCc -5'
11925 5' -63.2 NC_003278.1 + 19267 0.67 0.207387
Target:  5'- -aAGGCag-CGAcGCGacGGCCCGGGCGc -3'
miRNA:   3'- caUCCGgcaGUU-CGC--CCGGGCCCGCc -5'
11925 5' -63.2 NC_003278.1 + 7712 0.67 0.20685
Target:  5'- -cGGGCCGUCGuccgagacgAGCGcGCCUGGGgagcgacCGGu -3'
miRNA:   3'- caUCCGGCAGU---------UCGCcCGGGCCC-------GCC- -5'
11925 5' -63.2 NC_003278.1 + 21031 0.67 0.196355
Target:  5'- -aGGGCgGUCAccAGCGGGCcgaucaacaggCCGGccagcauGCGGa -3'
miRNA:   3'- caUCCGgCAGU--UCGCCCG-----------GGCC-------CGCC- -5'
11925 5' -63.2 NC_003278.1 + 17357 0.68 0.191786
Target:  5'- ---cGCC--CAAGCGGGCCUuGGCGGc -3'
miRNA:   3'- caucCGGcaGUUCGCCCGGGcCCGCC- -5'
11925 5' -63.2 NC_003278.1 + 26706 0.68 0.185351
Target:  5'- cGUAGGCgUGguugucgaacuucuUCAGGuCGaGGCCCaGGCGGg -3'
miRNA:   3'- -CAUCCG-GC--------------AGUUC-GC-CCGGGcCCGCC- -5'
11925 5' -63.2 NC_003278.1 + 26852 0.68 0.181966
Target:  5'- -gAGGuuGUCGAGUuggguuGGCUCGGGCa- -3'
miRNA:   3'- caUCCggCAGUUCGc-----CCGGGCCCGcc -5'
11925 5' -63.2 NC_003278.1 + 21413 0.68 0.177225
Target:  5'- ---cGCCGUC--GCGGGuguucgccgaCCUGGGCGGg -3'
miRNA:   3'- caucCGGCAGuuCGCCC----------GGGCCCGCC- -5'
11925 5' -63.2 NC_003278.1 + 21137 0.71 0.10597
Target:  5'- uGUGGGaaGagaucCAGGCGGGCCUGaacGGCGGg -3'
miRNA:   3'- -CAUCCggCa----GUUCGCCCGGGC---CCGCC- -5'
11925 5' -63.2 NC_003278.1 + 2984 0.72 0.084864
Target:  5'- gGUGGcGCC-UCcGGCGGuaCCGGGCGGc -3'
miRNA:   3'- -CAUC-CGGcAGuUCGCCcgGGCCCGCC- -5'
11925 5' -63.2 NC_003278.1 + 31519 0.74 0.057878
Target:  5'- -aAGGCUGUCGAGUGGGCcagcuacauggccaaCCuGGCGGc -3'
miRNA:   3'- caUCCGGCAGUUCGCCCG---------------GGcCCGCC- -5'
11925 5' -63.2 NC_003278.1 + 22416 0.77 0.034241
Target:  5'- gGUAGcCCGUCAcGCGGGCgaGGGCGGc -3'
miRNA:   3'- -CAUCcGGCAGUuCGCCCGggCCCGCC- -5'
11925 5' -63.2 NC_003278.1 + 13444 1.09 0.000111
Target:  5'- cGUAGGCCGUCAAGCGGGCCCGGGCGGc -3'
miRNA:   3'- -CAUCCGGCAGUUCGCCCGGGCCCGCC- -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.