miRNA display CGI


Results 1 - 19 of 19 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
23739 3' -49.3 NC_005261.1 + 28293 0.66 0.99789
Target:  5'- gCCGcGGU-CGUCUCCuUCGUucg-CGGCg -3'
miRNA:   3'- -GGU-CCAuGUAGAGG-AGCAugaaGUCG- -5'
23739 3' -49.3 NC_005261.1 + 77878 0.66 0.997395
Target:  5'- uCCAGGcucgcguccgcCGUCUCCUC--GCUgCAGCa -3'
miRNA:   3'- -GGUCCau---------GUAGAGGAGcaUGAaGUCG- -5'
23739 3' -49.3 NC_005261.1 + 101761 0.67 0.995853
Target:  5'- uCCAGGUGCAcgcccgcCUCCagcgcgCGUGCcgccCGGCg -3'
miRNA:   3'- -GGUCCAUGUa------GAGGa-----GCAUGaa--GUCG- -5'
23739 3' -49.3 NC_005261.1 + 50255 0.67 0.993444
Target:  5'- gCCAGGguggACAUgaCCUCGUc---CAGCa -3'
miRNA:   3'- -GGUCCa---UGUAgaGGAGCAugaaGUCG- -5'
23739 3' -49.3 NC_005261.1 + 13299 0.68 0.991293
Target:  5'- gCAGGUguGCGaCgggggCCUCGUACg-CAGCg -3'
miRNA:   3'- gGUCCA--UGUaGa----GGAGCAUGaaGUCG- -5'
23739 3' -49.3 NC_005261.1 + 91169 0.68 0.990026
Target:  5'- cCCGGGcgGCAgCUCCcgccgggcuUCGcgcGCUUCGGCg -3'
miRNA:   3'- -GGUCCa-UGUaGAGG---------AGCa--UGAAGUCG- -5'
23739 3' -49.3 NC_005261.1 + 115155 0.69 0.983465
Target:  5'- gCCGGGggucggGCGcCUCCUgcgcgaugggcaCGcGCUUCAGCa -3'
miRNA:   3'- -GGUCCa-----UGUaGAGGA------------GCaUGAAGUCG- -5'
23739 3' -49.3 NC_005261.1 + 80867 0.7 0.974067
Target:  5'- cCCAGGcGCGcUCagCCgcgCGgGCUUCAGCg -3'
miRNA:   3'- -GGUCCaUGU-AGa-GGa--GCaUGAAGUCG- -5'
23739 3' -49.3 NC_005261.1 + 99929 0.7 0.971208
Target:  5'- gCCAGGacaccguccaGCGUCUUgcacauguaCUCGUGCUUCuGCa -3'
miRNA:   3'- -GGUCCa---------UGUAGAG---------GAGCAUGAAGuCG- -5'
23739 3' -49.3 NC_005261.1 + 135447 0.71 0.957508
Target:  5'- cCCAGGcggcgcgggcgcUGCGggaCCUCGUACUgcgCGGCg -3'
miRNA:   3'- -GGUCC------------AUGUagaGGAGCAUGAa--GUCG- -5'
23739 3' -49.3 NC_005261.1 + 93702 0.72 0.924015
Target:  5'- gCGGGUGCcucuucCUCCUCGU-CgucgUCGGCg -3'
miRNA:   3'- gGUCCAUGua----GAGGAGCAuGa---AGUCG- -5'
23739 3' -49.3 NC_005261.1 + 63946 0.72 0.922872
Target:  5'- cCCGGGUGCAg--CCcCGUGCgcagcuggugcgUCAGCg -3'
miRNA:   3'- -GGUCCAUGUagaGGaGCAUGa-----------AGUCG- -5'
23739 3' -49.3 NC_005261.1 + 59862 0.73 0.912116
Target:  5'- gCGGG-ACGUCggCCUCGUACgggugcCGGCg -3'
miRNA:   3'- gGUCCaUGUAGa-GGAGCAUGaa----GUCG- -5'
23739 3' -49.3 NC_005261.1 + 13835 0.75 0.837753
Target:  5'- gUCAGGgucgacUGCGUCUCCUCGU-CgcCGGCg -3'
miRNA:   3'- -GGUCC------AUGUAGAGGAGCAuGaaGUCG- -5'
23739 3' -49.3 NC_005261.1 + 86315 0.75 0.82908
Target:  5'- uCCAGcGUGCugg-CCaCGUACUUCAGCg -3'
miRNA:   3'- -GGUC-CAUGuagaGGaGCAUGAAGUCG- -5'
23739 3' -49.3 NC_005261.1 + 80266 0.75 0.82908
Target:  5'- gCCAGGUACGUCUCCagGccGCccgaCAGCa -3'
miRNA:   3'- -GGUCCAUGUAGAGGagCa-UGaa--GUCG- -5'
23739 3' -49.3 NC_005261.1 + 101985 0.76 0.792526
Target:  5'- uCCAGGUACGUCacggCgUCGUAgUggcgCAGCu -3'
miRNA:   3'- -GGUCCAUGUAGa---GgAGCAUgAa---GUCG- -5'
23739 3' -49.3 NC_005261.1 + 105429 0.76 0.782969
Target:  5'- uCCAGGUAgGUCUCgCUCGcGCcguaCAGCg -3'
miRNA:   3'- -GGUCCAUgUAGAG-GAGCaUGaa--GUCG- -5'
23739 3' -49.3 NC_005261.1 + 98974 0.77 0.722887
Target:  5'- gCAGGUcccggagcACGUCgUCCUCGgcaauCUUCAGCg -3'
miRNA:   3'- gGUCCA--------UGUAG-AGGAGCau---GAAGUCG- -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.