miRNA display CGI


Results 1 - 20 of 26 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
7320 3' -57.8 NC_001900.1 + 16139 0.66 0.597097
Target:  5'- -aGcUCGGCgag-GGCGC-GGCUUCCc -3'
miRNA:   3'- ggCcAGCCGauagCCGCGaCCGAAGG- -5'
7320 3' -57.8 NC_001900.1 + 40208 0.66 0.597097
Target:  5'- gCGGUCcuGCUGgacgCGGCuGCUGGCc--- -3'
miRNA:   3'- gGCCAGc-CGAUa---GCCG-CGACCGaagg -5'
7320 3' -57.8 NC_001900.1 + 44779 0.66 0.597097
Target:  5'- gUGGcagCGGCcagCGGC-CUGGCUgCCg -3'
miRNA:   3'- gGCCa--GCCGauaGCCGcGACCGAaGG- -5'
7320 3' -57.8 NC_001900.1 + 16914 0.66 0.586368
Target:  5'- gCCGcuuGUCGGCUuggUGGCuggccuacugGCUGGCcugCCg -3'
miRNA:   3'- -GGC---CAGCCGAua-GCCG----------CGACCGaa-GG- -5'
7320 3' -57.8 NC_001900.1 + 39102 0.66 0.586368
Target:  5'- gCUuGUCGGCcucgAUCGGCGCUauGcGCUcCCc -3'
miRNA:   3'- -GGcCAGCCGa---UAGCCGCGA--C-CGAaGG- -5'
7320 3' -57.8 NC_001900.1 + 5542 0.66 0.575676
Target:  5'- cCCGGUgGGCUcaCGGCaggGGCcuggUCCc -3'
miRNA:   3'- -GGCCAgCCGAuaGCCGcgaCCGa---AGG- -5'
7320 3' -57.8 NC_001900.1 + 33298 0.66 0.575676
Target:  5'- aCGcGUCGGC---CGGCGCaGGCcgcaccUCCa -3'
miRNA:   3'- gGC-CAGCCGauaGCCGCGaCCGa-----AGG- -5'
7320 3' -57.8 NC_001900.1 + 32659 0.66 0.554434
Target:  5'- cUCGacGUgGGCcaugaGUCGGUGCUGGagcaUUCCa -3'
miRNA:   3'- -GGC--CAgCCGa----UAGCCGCGACCg---AAGG- -5'
7320 3' -57.8 NC_001900.1 + 5495 0.66 0.554434
Target:  5'- gUCGGuUCGGgUGUCGuaggcgucccCGCUGGCguacUCCg -3'
miRNA:   3'- -GGCC-AGCCgAUAGCc---------GCGACCGa---AGG- -5'
7320 3' -57.8 NC_001900.1 + 13281 0.66 0.554434
Target:  5'- gCgGGUUugGGUUuggUGGUGCgaGGCUUCCg -3'
miRNA:   3'- -GgCCAG--CCGAua-GCCGCGa-CCGAAGG- -5'
7320 3' -57.8 NC_001900.1 + 1381 0.66 0.553377
Target:  5'- -gGGUCcaucgGGCUGUuguagguccagucUGGCGuCUGGCUgCCg -3'
miRNA:   3'- ggCCAG-----CCGAUA-------------GCCGC-GACCGAaGG- -5'
7320 3' -57.8 NC_001900.1 + 3133 0.66 0.543898
Target:  5'- gCCGGUCGG--GUCGGCG--GGUgcCCg -3'
miRNA:   3'- -GGCCAGCCgaUAGCCGCgaCCGaaGG- -5'
7320 3' -57.8 NC_001900.1 + 903 0.67 0.533428
Target:  5'- -aGGUCgaccaGGCgcuuuUCcGCGCUGGCcUCCa -3'
miRNA:   3'- ggCCAG-----CCGau---AGcCGCGACCGaAGG- -5'
7320 3' -57.8 NC_001900.1 + 1 0.67 0.524068
Target:  5'- --GGUCGGUUAUgCGGC-CgagccauccuguacgGGUUUCCa -3'
miRNA:   3'- ggCCAGCCGAUA-GCCGcGa--------------CCGAAGG- -5'
7320 3' -57.8 NC_001900.1 + 43927 0.67 0.512713
Target:  5'- aCCaGUCGGCccagcccUC-GCGCUGGCcgUUCCc -3'
miRNA:   3'- -GGcCAGCCGau-----AGcCGCGACCG--AAGG- -5'
7320 3' -57.8 NC_001900.1 + 27451 0.67 0.482289
Target:  5'- cCCGGUagcacccucugGGCUcuggaGGgGCUGGCUUCg -3'
miRNA:   3'- -GGCCAg----------CCGAuag--CCgCGACCGAAGg -5'
7320 3' -57.8 NC_001900.1 + 39799 0.68 0.472342
Target:  5'- cCCGGagcuggCGGCUGaucUCaucGCGCUGGCU-CUg -3'
miRNA:   3'- -GGCCa-----GCCGAU---AGc--CGCGACCGAaGG- -5'
7320 3' -57.8 NC_001900.1 + 23469 0.68 0.462499
Target:  5'- cCUGGUCGGUccacUCGGCcugaUGGCcgUCCu -3'
miRNA:   3'- -GGCCAGCCGau--AGCCGcg--ACCGa-AGG- -5'
7320 3' -57.8 NC_001900.1 + 44171 0.68 0.452765
Target:  5'- uUGGUCGGCU-UCGGUGCcuUGcccuuCUUCCc -3'
miRNA:   3'- gGCCAGCCGAuAGCCGCG--ACc----GAAGG- -5'
7320 3' -57.8 NC_001900.1 + 1609 0.7 0.353772
Target:  5'- -aGGUCGGCUucUCGGCcGgUGGCgacaCCc -3'
miRNA:   3'- ggCCAGCCGAu-AGCCG-CgACCGaa--GG- -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.