miRNA display CGI


Results 1 - 20 of 79 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
18400 3' -59.2 NC_004681.1 + 22279 0.67 0.521179
Target:  5'- uGGCGGCGugGGCGCCcugccCGUcauggcgcagggugaGCCCGGu -3'
miRNA:   3'- gCCGCCGU--UUGCGGaa---GCG---------------UGGGCCu -5'
18400 3' -59.2 NC_004681.1 + 27814 0.69 0.449416
Target:  5'- gCGGCGGCGccAACGgUggCGCAUCCGu- -3'
miRNA:   3'- -GCCGCCGU--UUGCgGaaGCGUGGGCcu -5'
18400 3' -59.2 NC_004681.1 + 14572 0.68 0.477891
Target:  5'- aCGGCcGCAGuCGCCUUCGgCAC-CGGc -3'
miRNA:   3'- -GCCGcCGUUuGCGGAAGC-GUGgGCCu -5'
18400 3' -59.2 NC_004681.1 + 37206 0.68 0.477891
Target:  5'- aCGGCGcGCAcguaGAUGUC-UC-CACCCGGGg -3'
miRNA:   3'- -GCCGC-CGU----UUGCGGaAGcGUGGGCCU- -5'
18400 3' -59.2 NC_004681.1 + 19435 0.68 0.486607
Target:  5'- -uGCGGCAccgauggcaccguAAUGCgUUgGUACCCGGGa -3'
miRNA:   3'- gcCGCCGU-------------UUGCGgAAgCGUGGGCCU- -5'
18400 3' -59.2 NC_004681.1 + 32955 0.68 0.48758
Target:  5'- uCGGCGGCGggUGCUUcgGCaACCCGu- -3'
miRNA:   3'- -GCCGCCGUuuGCGGAagCG-UGGGCcu -5'
18400 3' -59.2 NC_004681.1 + 33286 0.68 0.49736
Target:  5'- gGGUGuCAucGACGCCggUCGCGCCgCGGu -3'
miRNA:   3'- gCCGCcGU--UUGCGGa-AGCGUGG-GCCu -5'
18400 3' -59.2 NC_004681.1 + 32234 0.67 0.517177
Target:  5'- -aGCGGCAGcGCgGCCUcgugUCuaGCCCGGAc -3'
miRNA:   3'- gcCGCCGUU-UG-CGGA----AGcgUGGGCCU- -5'
18400 3' -59.2 NC_004681.1 + 42267 0.67 0.517177
Target:  5'- -cGCGGaAGGCGCCUUCacgGCCUGGAa -3'
miRNA:   3'- gcCGCCgUUUGCGGAAGcg-UGGGCCU- -5'
18400 3' -59.2 NC_004681.1 + 36962 0.69 0.421901
Target:  5'- gCGGCGGCcgucaccgGAACGCCcUUGCACgagUGGAu -3'
miRNA:   3'- -GCCGCCG--------UUUGCGGaAGCGUGg--GCCU- -5'
18400 3' -59.2 NC_004681.1 + 58050 0.69 0.411183
Target:  5'- uCGGCGGCAugagcaacgagaacuGGCGCgUggaagCGCgcugcaacggccaagACCCGGAa -3'
miRNA:   3'- -GCCGCCGU---------------UUGCGgAa----GCG---------------UGGGCCU- -5'
18400 3' -59.2 NC_004681.1 + 30577 0.7 0.394562
Target:  5'- cCGGC-GCAAGCGCCaaggcggUUCGCugCCuGAc -3'
miRNA:   3'- -GCCGcCGUUUGCGG-------AAGCGugGGcCU- -5'
18400 3' -59.2 NC_004681.1 + 18188 0.76 0.157122
Target:  5'- uGGCGGUccugGAGCGCCUcccggCGCAccCCCGGGu -3'
miRNA:   3'- gCCGCCG----UUUGCGGAa----GCGU--GGGCCU- -5'
18400 3' -59.2 NC_004681.1 + 54994 0.73 0.246219
Target:  5'- uGGC-GCAAGCucgGCCUgaagugccuucaggUCGCGCCCGGGg -3'
miRNA:   3'- gCCGcCGUUUG---CGGA--------------AGCGUGGGCCU- -5'
18400 3' -59.2 NC_004681.1 + 9289 0.73 0.24804
Target:  5'- gGGCGGCAacuucuucggcAACGCCUaCGgcaACCCGGu -3'
miRNA:   3'- gCCGCCGU-----------UUGCGGAaGCg--UGGGCCu -5'
18400 3' -59.2 NC_004681.1 + 26812 0.72 0.266875
Target:  5'- gCGGCGGCcAACGCugacgucuucggCUUCGuUACCUGGGa -3'
miRNA:   3'- -GCCGCCGuUUGCG------------GAAGC-GUGGGCCU- -5'
18400 3' -59.2 NC_004681.1 + 60389 0.71 0.322723
Target:  5'- uGGCGGCGAAUGuCCUggaGCACgguaCGGGg -3'
miRNA:   3'- gCCGCCGUUUGC-GGAag-CGUGg---GCCU- -5'
18400 3' -59.2 NC_004681.1 + 67761 0.71 0.337981
Target:  5'- gCGGCGGUAcuucAAUGCCUagccUCGgccguagccucCACCCGGGc -3'
miRNA:   3'- -GCCGCCGU----UUGCGGA----AGC-----------GUGGGCCU- -5'
18400 3' -59.2 NC_004681.1 + 66233 0.7 0.353758
Target:  5'- uCGcGCGGCAAGCGCaugaaGCACaccaCGGAa -3'
miRNA:   3'- -GC-CGCCGUUUGCGgaag-CGUGg---GCCU- -5'
18400 3' -59.2 NC_004681.1 + 14455 0.7 0.361838
Target:  5'- gCGGaGGCGAACGCCgcgCGCGCCg--- -3'
miRNA:   3'- -GCCgCCGUUUGCGGaa-GCGUGGgccu -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.