miRNA display CGI


Results 1 - 11 of 11 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
27289 3' -50.3 NC_005856.1 + 64652 0.66 0.970577
Target:  5'- cACCGGCGGCGGCcaauuuuUUAuauGCGGauaacuGGUAGUc -3'
miRNA:   3'- -UGGUCGCCGCUGu------AAU---UGCU------CUAUCA- -5'
27289 3' -50.3 NC_005856.1 + 20804 0.67 0.967343
Target:  5'- cCCGGCGGgGGUAUggacUGACGGGAUcGGUa -3'
miRNA:   3'- uGGUCGCCgCUGUA----AUUGCUCUA-UCA- -5'
27289 3' -50.3 NC_005856.1 + 58515 0.68 0.932199
Target:  5'- uUgAGCGGUGGCAUUAucaGAGAUAc- -3'
miRNA:   3'- uGgUCGCCGCUGUAAUug-CUCUAUca -5'
27289 3' -50.3 NC_005856.1 + 2893 0.7 0.863752
Target:  5'- cACCAGCGGCGGC-UUAGCaauacaacuGaAGGUAGc -3'
miRNA:   3'- -UGGUCGCCGCUGuAAUUG---------C-UCUAUCa -5'
27289 3' -50.3 NC_005856.1 + 17080 0.73 0.751007
Target:  5'- cACCGGUgaaGGCGGCAUUGGCGGGuccGUc -3'
miRNA:   3'- -UGGUCG---CCGCUGUAAUUGCUCuauCA- -5'
27289 3' -50.3 NC_005856.1 + 65861 0.73 0.719335
Target:  5'- uGCCAGCGGCGGCAggca-GAGGa--- -3'
miRNA:   3'- -UGGUCGCCGCUGUaauugCUCUauca -5'
27289 3' -50.3 NC_005856.1 + 66576 0.73 0.708588
Target:  5'- gGCCAGCGGUGcGCAagAACGgcAGAUGGa -3'
miRNA:   3'- -UGGUCGCCGC-UGUaaUUGC--UCUAUCa -5'
27289 3' -50.3 NC_005856.1 + 55301 0.74 0.697765
Target:  5'- aACCGGCGGC-ACAgaUUAACGAGAa--- -3'
miRNA:   3'- -UGGUCGCCGcUGU--AAUUGCUCUauca -5'
27289 3' -50.3 NC_005856.1 + 38845 0.76 0.555108
Target:  5'- uACCGGCGGC-ACAUUcGGCGAGAUGu- -3'
miRNA:   3'- -UGGUCGCCGcUGUAA-UUGCUCUAUca -5'
27289 3' -50.3 NC_005856.1 + 71959 0.79 0.422024
Target:  5'- gGCgGGCGGCGACAaUGAUGAGAUcGGa -3'
miRNA:   3'- -UGgUCGCCGCUGUaAUUGCUCUA-UCa -5'
27289 3' -50.3 NC_005856.1 + 15450 1.08 0.006427
Target:  5'- cACCAGCGGCGACAUUAACGAGAUAGUg -3'
miRNA:   3'- -UGGUCGCCGCUGUAAUUGCUCUAUCA- -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.