miRNA display CGI


Results 1 - 16 of 16 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
28403 3' -52.2 NC_005946.1 + 20360 0.66 0.966953
Target:  5'- cCGUGAGcAGGCUggagaagGUgUCCgcggcggucgacgCCACCg -3'
miRNA:   3'- -GCACUC-UCCGGaaa----UAgAGGa------------GGUGG- -5'
28403 3' -52.2 NC_005946.1 + 27447 0.66 0.964942
Target:  5'- -cUGAGGGGCCcg---C-CCUCgGCCg -3'
miRNA:   3'- gcACUCUCCGGaaauaGaGGAGgUGG- -5'
28403 3' -52.2 NC_005946.1 + 72658 0.66 0.964942
Target:  5'- uCGUGAggGAGGCCaggcucUGUCUCC-CCGgUg -3'
miRNA:   3'- -GCACU--CUCCGGaa----AUAGAGGaGGUgG- -5'
28403 3' -52.2 NC_005946.1 + 33110 0.66 0.961402
Target:  5'- --aGAGucuGGCCUc-AUCUCCUUCAUUg -3'
miRNA:   3'- gcaCUCu--CCGGAaaUAGAGGAGGUGG- -5'
28403 3' -52.2 NC_005946.1 + 15033 0.66 0.957623
Target:  5'- gGUGAGAGGaucccacccCCgucaagaCUCCUCCgACCc -3'
miRNA:   3'- gCACUCUCC---------GGaaaua--GAGGAGG-UGG- -5'
28403 3' -52.2 NC_005946.1 + 24688 0.66 0.957623
Target:  5'- cCGgGuGGGGCCUc---CUCCUCUAUCu -3'
miRNA:   3'- -GCaCuCUCCGGAaauaGAGGAGGUGG- -5'
28403 3' -52.2 NC_005946.1 + 55822 0.66 0.953597
Target:  5'- gGUcAG-GGCCUUcuUUgacgCCUCCGCCa -3'
miRNA:   3'- gCAcUCuCCGGAAauAGa---GGAGGUGG- -5'
28403 3' -52.2 NC_005946.1 + 62196 0.67 0.949322
Target:  5'- cCGgGGGAaaGGCCUacGUCcCCUUCGCCu -3'
miRNA:   3'- -GCaCUCU--CCGGAaaUAGaGGAGGUGG- -5'
28403 3' -52.2 NC_005946.1 + 48036 0.67 0.94888
Target:  5'- -cUGGGAGGCCUggGUgggcggcCUCCUUgGCg -3'
miRNA:   3'- gcACUCUCCGGAaaUA-------GAGGAGgUGg -5'
28403 3' -52.2 NC_005946.1 + 59504 0.67 0.944792
Target:  5'- gGUGGgguccaggcccGAGGCCUUggcGUCUCCccUCUGCUu -3'
miRNA:   3'- gCACU-----------CUCCGGAAa--UAGAGG--AGGUGG- -5'
28403 3' -52.2 NC_005946.1 + 24339 0.67 0.940005
Target:  5'- -cUGGGAGGCC-----CUCuUUCCACCg -3'
miRNA:   3'- gcACUCUCCGGaaauaGAG-GAGGUGG- -5'
28403 3' -52.2 NC_005946.1 + 86120 0.68 0.905804
Target:  5'- uGUcGAG-GGCUUccagcuUCUCCUCCAUCu -3'
miRNA:   3'- gCA-CUCuCCGGAaau---AGAGGAGGUGG- -5'
28403 3' -52.2 NC_005946.1 + 16625 0.68 0.895107
Target:  5'- uCGUaGAGAuGGCCUUUggccccgucaacgcaGacUCUCCUCC-CCu -3'
miRNA:   3'- -GCA-CUCU-CCGGAAA---------------U--AGAGGAGGuGG- -5'
28403 3' -52.2 NC_005946.1 + 70218 0.7 0.837589
Target:  5'- uCG-GGGcAGGCCcucagagucUUUAUgUCCUCCACUa -3'
miRNA:   3'- -GCaCUC-UCCGG---------AAAUAgAGGAGGUGG- -5'
28403 3' -52.2 NC_005946.1 + 36981 0.7 0.828891
Target:  5'- gCGUGuaucaGGAuGCCUccgccccUCUCCUCCACCu -3'
miRNA:   3'- -GCAC-----UCUcCGGAaau----AGAGGAGGUGG- -5'
28403 3' -52.2 NC_005946.1 + 64053 1.13 0.002513
Target:  5'- aCGUGAGAGGCCUUUAUCUCCUCCACCu -3'
miRNA:   3'- -GCACUCUCCGGAAAUAGAGGAGGUGG- -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.