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
27475 3' -55.6 NC_005869.1 + 6195 0.66 0.538222
Target:  5'- gGAGAGGucGCCGCGGgcgaUgGCUUCGGUg -3'
miRNA:   3'- -UUCUUC--CGGUGCCaca-GgCGAAGUCG- -5'
27475 3' -55.6 NC_005869.1 + 26772 0.66 0.527099
Target:  5'- cAGGAAGGCCGCaGcagCgGCggCAGCa -3'
miRNA:   3'- -UUCUUCCGGUGcCacaGgCGaaGUCG- -5'
27475 3' -55.6 NC_005869.1 + 19250 0.67 0.48355
Target:  5'- uAGAAGGCC-CGG-GagCGCagCGGCa -3'
miRNA:   3'- uUCUUCCGGuGCCaCagGCGaaGUCG- -5'
27475 3' -55.6 NC_005869.1 + 24761 0.67 0.47293
Target:  5'- gAAGAagAGGCgGCGGUGgCCGgaccCAGCa -3'
miRNA:   3'- -UUCU--UCCGgUGCCACaGGCgaa-GUCG- -5'
27475 3' -55.6 NC_005869.1 + 30262 0.67 0.47293
Target:  5'- ------uCCAUGGUGUUCGCUcCAGCg -3'
miRNA:   3'- uucuuccGGUGCCACAGGCGAaGUCG- -5'
27475 3' -55.6 NC_005869.1 + 9493 0.67 0.452052
Target:  5'- -cGAAGGCgcccccgcgcagCGCGGUG-CCGCUgCAGa -3'
miRNA:   3'- uuCUUCCG------------GUGCCACaGGCGAaGUCg -5'
27475 3' -55.6 NC_005869.1 + 16534 0.67 0.441804
Target:  5'- cAGGAGGUgGUGGUGgagccgcCCGCUcCAGCa -3'
miRNA:   3'- uUCUUCCGgUGCCACa------GGCGAaGUCG- -5'
27475 3' -55.6 NC_005869.1 + 19322 0.67 0.431689
Target:  5'- cGGAAGGUCAcCGG-GUCCuGCaUCAGg -3'
miRNA:   3'- uUCUUCCGGU-GCCaCAGG-CGaAGUCg -5'
27475 3' -55.6 NC_005869.1 + 18752 0.69 0.364879
Target:  5'- -uGggGGCCACGc-GUCC-CUUCAGa -3'
miRNA:   3'- uuCuuCCGGUGCcaCAGGcGAAGUCg -5'
27475 3' -55.6 NC_005869.1 + 4601 0.69 0.355936
Target:  5'- -cGAuGGCgAUGG-GUCCGCgggCGGCg -3'
miRNA:   3'- uuCUuCCGgUGCCaCAGGCGaa-GUCG- -5'
27475 3' -55.6 NC_005869.1 + 10706 0.69 0.338516
Target:  5'- gGGGAGGGCCuggcGCGGcUGUCgggCGCggCGGCc -3'
miRNA:   3'- -UUCUUCCGG----UGCC-ACAG---GCGaaGUCG- -5'
27475 3' -55.6 NC_005869.1 + 332 0.7 0.321725
Target:  5'- ----cGGCCcgcucGCGGUGUUCGCUcacacucgucUCGGCg -3'
miRNA:   3'- uucuuCCGG-----UGCCACAGGCGA----------AGUCG- -5'
27475 3' -55.6 NC_005869.1 + 24230 0.7 0.303194
Target:  5'- cAGGAGGCCugGGgcauggccgaccgcaUCCGCcugCAGCg -3'
miRNA:   3'- uUCUUCCGGugCCac-------------AGGCGaa-GUCG- -5'
27475 3' -55.6 NC_005869.1 + 20954 0.71 0.267906
Target:  5'- cGAG-AGGCCGgGGUGgagggCCGCgagggCGGCu -3'
miRNA:   3'- -UUCuUCCGGUgCCACa----GGCGaa---GUCG- -5'
27475 3' -55.6 NC_005869.1 + 5496 0.75 0.153626
Target:  5'- --cGGGGCCGCGGUGcCCGCa--AGCa -3'
miRNA:   3'- uucUUCCGGUGCCACaGGCGaagUCG- -5'
27475 3' -55.6 NC_005869.1 + 27887 0.89 0.013143
Target:  5'- cAAGAAGGCCACGGUcUgCGCUUCAGCc -3'
miRNA:   3'- -UUCUUCCGGUGCCAcAgGCGAAGUCG- -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.