miRNA display CGI


Results 1 - 20 of 41 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
27465 3' -57.1 NC_005869.1 + 205 0.69 0.318895
Target:  5'- uCCUCCgcGG-GG-CGGgGcCGAGCGGCg -3'
miRNA:   3'- -GGAGGa-CCaCCaGUCgCuGCUCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 1933 0.72 0.221882
Target:  5'- ---gCUGGUGGcgCAGCGGC-AGCAGUa -3'
miRNA:   3'- ggagGACCACCa-GUCGCUGcUCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 2345 0.71 0.253291
Target:  5'- aUCUUCUGGUGGuUCAGgGA--GGCGGUg -3'
miRNA:   3'- -GGAGGACCACC-AGUCgCUgcUCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 2992 0.78 0.075947
Target:  5'- gCUCCUGGUGGU--G-GACGAGCAGUc -3'
miRNA:   3'- gGAGGACCACCAguCgCUGCUCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 2999 0.66 0.486216
Target:  5'- uCUUCCUGGcuuuguguccaucacGGauccUCAGCu-CGAGCAGCg -3'
miRNA:   3'- -GGAGGACCa--------------CC----AGUCGcuGCUCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 4902 0.69 0.351905
Target:  5'- cCCgagcCCUcGGUGG-CAaCGACGAGCuGCu -3'
miRNA:   3'- -GGa---GGA-CCACCaGUcGCUGCUCGuCG- -5'
27465 3' -57.1 NC_005869.1 + 6107 0.66 0.516815
Target:  5'- gUCUCCaucgcGGUGG-CGGCGGuCGcuGUAGCg -3'
miRNA:   3'- -GGAGGa----CCACCaGUCGCU-GCu-CGUCG- -5'
27465 3' -57.1 NC_005869.1 + 6577 0.69 0.314149
Target:  5'- uCCUCgUcGGgggGGUCGGCGucgauggugaagaggGCGGGCAGg -3'
miRNA:   3'- -GGAGgA-CCa--CCAGUCGC---------------UGCUCGUCg -5'
27465 3' -57.1 NC_005869.1 + 6654 0.73 0.193851
Target:  5'- gCCgUCgaGGcGGUCcugccAGCGGCGGGCGGCc -3'
miRNA:   3'- -GG-AGgaCCaCCAG-----UCGCUGCUCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 7832 0.66 0.516815
Target:  5'- ----gUGGUGG-CGGCGGCG-GUGGCu -3'
miRNA:   3'- ggaggACCACCaGUCGCUGCuCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 7890 0.72 0.216012
Target:  5'- uCCUCCggaggggcggcaUGGUGGgCGGUGGacgGGGCGGCg -3'
miRNA:   3'- -GGAGG------------ACCACCaGUCGCUg--CUCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 8156 0.72 0.218344
Target:  5'- gCCUCCUggaugcucuugaugaGGUGG-CAGCGGCccugggugaaGAGCAGg -3'
miRNA:   3'- -GGAGGA---------------CCACCaGUCGCUG----------CUCGUCg -5'
27465 3' -57.1 NC_005869.1 + 8516 0.68 0.387266
Target:  5'- gCCUCCgc--GGccUCGGCGGCG-GCGGCc -3'
miRNA:   3'- -GGAGGaccaCC--AGUCGCUGCuCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 9412 0.68 0.396465
Target:  5'- gCUCgUGGgcGGUUGGCG-CG-GCAGCu -3'
miRNA:   3'- gGAGgACCa-CCAGUCGCuGCuCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 9544 0.69 0.34343
Target:  5'- uUCUCCUGGcGccgCGGCGGCGuGGCGGg -3'
miRNA:   3'- -GGAGGACCaCca-GUCGCUGC-UCGUCg -5'
27465 3' -57.1 NC_005869.1 + 9825 0.72 0.216012
Target:  5'- gCCUCCUGcUGG-CAGCGGCcgauguccuuGAGCuGCu -3'
miRNA:   3'- -GGAGGACcACCaGUCGCUG----------CUCGuCG- -5'
27465 3' -57.1 NC_005869.1 + 10719 0.68 0.357061
Target:  5'- gCagCUGGUGGagauggaucucaaCAGCGAgaaCGGGCAGCg -3'
miRNA:   3'- gGagGACCACCa------------GUCGCU---GCUCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 11637 0.67 0.434628
Target:  5'- gCCUCCUGGuUGGcgCGGaaGAUGGGCuggacgucGGCg -3'
miRNA:   3'- -GGAGGACC-ACCa-GUCg-CUGCUCG--------UCG- -5'
27465 3' -57.1 NC_005869.1 + 11998 0.67 0.434628
Target:  5'- gCCUCCgGuGUGGcgggCGGCcguguugacgauGGCGcAGCAGCg -3'
miRNA:   3'- -GGAGGaC-CACCa---GUCG------------CUGC-UCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 12580 0.66 0.516815
Target:  5'- aCCUCCaGGUacucaucuuuguGGUUGGCGuaguCGGGCAccugGCg -3'
miRNA:   3'- -GGAGGaCCA------------CCAGUCGCu---GCUCGU----CG- -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.