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
28172 3' -52.9 NC_005887.1 + 30474 0.65 0.801963
Target:  5'- -aGGCGGUGCgcgacgcggccCGUGCGUUgCGcaccGCa -3'
miRNA:   3'- cgCCGCCACGaa---------GCACGUAA-GCau--CG- -5'
28172 3' -52.9 NC_005887.1 + 840 0.66 0.797986
Target:  5'- cGCGGCcgcgaagaaagccaaGGUGCc-CGUGgAcgCGUGGCc -3'
miRNA:   3'- -CGCCG---------------CCACGaaGCACgUaaGCAUCG- -5'
28172 3' -52.9 NC_005887.1 + 26103 0.66 0.79398
Target:  5'- gGCGaCGGUGCc-CGUGCGcUCGccGGCc -3'
miRNA:   3'- -CGCcGCCACGaaGCACGUaAGCa-UCG- -5'
28172 3' -52.9 NC_005887.1 + 21348 0.66 0.792974
Target:  5'- cCGGCGG-GgUUCaacagcugaauagGUGCGagCGUGGCg -3'
miRNA:   3'- cGCCGCCaCgAAG-------------CACGUaaGCAUCG- -5'
28172 3' -52.9 NC_005887.1 + 36531 0.66 0.769364
Target:  5'- gGCGGCGGcagGUauUUCGcgaauuccggcagGCGUUCGUGcGCc -3'
miRNA:   3'- -CGCCGCCa--CG--AAGCa------------CGUAAGCAU-CG- -5'
28172 3' -52.9 NC_005887.1 + 23248 0.66 0.763068
Target:  5'- gGCGGCGGU-CggCGcGCAaaaggcgcagcUCGUGGCg -3'
miRNA:   3'- -CGCCGCCAcGaaGCaCGUa----------AGCAUCG- -5'
28172 3' -52.9 NC_005887.1 + 41794 0.67 0.730868
Target:  5'- cCGGCGGU-CUUCGcgcUGUAUcCGgcGCg -3'
miRNA:   3'- cGCCGCCAcGAAGC---ACGUAaGCauCG- -5'
28172 3' -52.9 NC_005887.1 + 12390 0.67 0.69772
Target:  5'- cGCGGCGGUGUUcgCG-GCGcUCGa--- -3'
miRNA:   3'- -CGCCGCCACGAa-GCaCGUaAGCaucg -5'
28172 3' -52.9 NC_005887.1 + 11873 0.68 0.663962
Target:  5'- uCGGCGGUcUUUCGU-CGUUCGgcAGCg -3'
miRNA:   3'- cGCCGCCAcGAAGCAcGUAAGCa-UCG- -5'
28172 3' -52.9 NC_005887.1 + 4753 0.68 0.663962
Target:  5'- cCGGCGGUGCUUU-UGCGa-CG-AGCg -3'
miRNA:   3'- cGCCGCCACGAAGcACGUaaGCaUCG- -5'
28172 3' -52.9 NC_005887.1 + 15871 0.69 0.618557
Target:  5'- aGCGGcCGGcaUGCc-CGUGC--UCGUGGCc -3'
miRNA:   3'- -CGCC-GCC--ACGaaGCACGuaAGCAUCG- -5'
28172 3' -52.9 NC_005887.1 + 27107 0.69 0.618557
Target:  5'- uGCGGCuGccUGCUUCGggccGCcgUUGUAGUc -3'
miRNA:   3'- -CGCCGcC--ACGAAGCa---CGuaAGCAUCG- -5'
28172 3' -52.9 NC_005887.1 + 2169 0.69 0.584596
Target:  5'- gGCGGCGauuccCUUCGUGCcgUCGcgcAGCu -3'
miRNA:   3'- -CGCCGCcac--GAAGCACGuaAGCa--UCG- -5'
28172 3' -52.9 NC_005887.1 + 26676 0.69 0.584596
Target:  5'- cGCGGCGGUGagcuggUCGaGC--UCGgcGCg -3'
miRNA:   3'- -CGCCGCCACga----AGCaCGuaAGCauCG- -5'
28172 3' -52.9 NC_005887.1 + 34942 0.71 0.496504
Target:  5'- gGCGGCgGGUGCgacCGUGgCGaUCGUcgucGGCg -3'
miRNA:   3'- -CGCCG-CCACGaa-GCAC-GUaAGCA----UCG- -5'
28172 3' -52.9 NC_005887.1 + 41853 0.71 0.485886
Target:  5'- gGCGGCGccugaUGC-UCGUGCcGUUCG-AGCg -3'
miRNA:   3'- -CGCCGCc----ACGaAGCACG-UAAGCaUCG- -5'
28172 3' -52.9 NC_005887.1 + 18553 0.71 0.475378
Target:  5'- gGCGGCGGcgccgGCUUCGcgggcgacaUGCucgUCGcGGCg -3'
miRNA:   3'- -CGCCGCCa----CGAAGC---------ACGua-AGCaUCG- -5'
28172 3' -52.9 NC_005887.1 + 29595 0.71 0.475378
Target:  5'- aCGGCGGUGUUcUCGcguUGCAgcgCGgcGCg -3'
miRNA:   3'- cGCCGCCACGA-AGC---ACGUaa-GCauCG- -5'
28172 3' -52.9 NC_005887.1 + 8713 0.72 0.444558
Target:  5'- cGCGGCGGUaagcGCUUCGUcGCGgccacgaaggaUucgacgaaacagUCGUGGCu -3'
miRNA:   3'- -CGCCGCCA----CGAAGCA-CGU-----------A------------AGCAUCG- -5'
28172 3' -52.9 NC_005887.1 + 39412 0.72 0.414892
Target:  5'- cGCGGCGGUGCcgCG-GCGcuugCGcAGCu -3'
miRNA:   3'- -CGCCGCCACGaaGCaCGUaa--GCaUCG- -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.