miRNA display CGI


Results 1 - 18 of 18 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
29230 3' -47.8 NC_006150.1 + 128420 0.66 0.999974
Target:  5'- uGGUa--GUCGCGAUAgcGACCGCa--- -3'
miRNA:   3'- -CCAauaCAGCGCUGUa-UUGGCGcuau -5'
29230 3' -47.8 NC_006150.1 + 46872 0.66 0.999973
Target:  5'- aGGUUccggaAUGUCGCGGCAcguucugUAACUuuuaaGCGGUu -3'
miRNA:   3'- -CCAA-----UACAGCGCUGU-------AUUGG-----CGCUAu -5'
29230 3' -47.8 NC_006150.1 + 147287 0.66 0.999953
Target:  5'- cGGUgccaaGUCGCGAUAguggcgauauGCgGCGAUAg -3'
miRNA:   3'- -CCAaua--CAGCGCUGUau--------UGgCGCUAU- -5'
29230 3' -47.8 NC_006150.1 + 88793 0.67 0.999861
Target:  5'- cGGccgAUGUCGCcgucGCAUAGCCgGCGGc- -3'
miRNA:   3'- -CCaa-UACAGCGc---UGUAUUGG-CGCUau -5'
29230 3' -47.8 NC_006150.1 + 169127 0.67 0.999821
Target:  5'- uGGUgUGUGUUGCGuguGCAUGugCGcCGAg- -3'
miRNA:   3'- -CCA-AUACAGCGC---UGUAUugGC-GCUau -5'
29230 3' -47.8 NC_006150.1 + 146957 0.67 0.999821
Target:  5'- -cUUAUGUCGCGGUAU-AUCGCGGa- -3'
miRNA:   3'- ccAAUACAGCGCUGUAuUGGCGCUau -5'
29230 3' -47.8 NC_006150.1 + 210412 0.67 0.999816
Target:  5'- aGGUgugccgGUGUccgacccCGCGccGCAUGACUGCGAa- -3'
miRNA:   3'- -CCAa-----UACA-------GCGC--UGUAUUGGCGCUau -5'
29230 3' -47.8 NC_006150.1 + 125827 0.67 0.99971
Target:  5'- aGGUagagcGUCGCGugAUAcaguuucuCCGCGGUGa -3'
miRNA:   3'- -CCAaua--CAGCGCugUAUu-------GGCGCUAU- -5'
29230 3' -47.8 NC_006150.1 + 149316 0.67 0.99971
Target:  5'- cGGUUGUG--GCGGCA--GCgGCGGUAg -3'
miRNA:   3'- -CCAAUACagCGCUGUauUGgCGCUAU- -5'
29230 3' -47.8 NC_006150.1 + 198366 0.68 0.999543
Target:  5'- cGUUAggagaagCGCGAUAUAGCCGcCGAc- -3'
miRNA:   3'- cCAAUaca----GCGCUGUAUUGGC-GCUau -5'
29230 3' -47.8 NC_006150.1 + 73682 0.69 0.998949
Target:  5'- ----uUGUCGUGACA-AAUCGCGAg- -3'
miRNA:   3'- ccaauACAGCGCUGUaUUGGCGCUau -5'
29230 3' -47.8 NC_006150.1 + 57756 0.69 0.998949
Target:  5'- uGGUggAUuUUGUGACAUGAuCCGCGAa- -3'
miRNA:   3'- -CCAa-UAcAGCGCUGUAUU-GGCGCUau -5'
29230 3' -47.8 NC_006150.1 + 145165 0.69 0.998459
Target:  5'- -uUUAUGcgccUCGCGGCcgGuCCGCGAUGa -3'
miRNA:   3'- ccAAUAC----AGCGCUGuaUuGGCGCUAU- -5'
29230 3' -47.8 NC_006150.1 + 183008 0.7 0.997372
Target:  5'- -cUUAUGUCcCGACGUuGCCGUGGUu -3'
miRNA:   3'- ccAAUACAGcGCUGUAuUGGCGCUAu -5'
29230 3' -47.8 NC_006150.1 + 101779 0.7 0.996892
Target:  5'- aGUUAUG-CGUGACGUGcuGCCGCa--- -3'
miRNA:   3'- cCAAUACaGCGCUGUAU--UGGCGcuau -5'
29230 3' -47.8 NC_006150.1 + 2149 0.71 0.994996
Target:  5'- uGGgaAUG-CGCGGuaacCGUAGCCGCGAc- -3'
miRNA:   3'- -CCaaUACaGCGCU----GUAUUGGCGCUau -5'
29230 3' -47.8 NC_006150.1 + 146996 0.94 0.182425
Target:  5'- cGGUUAUGUCGCGACAUAACCGUcAUGu -3'
miRNA:   3'- -CCAAUACAGCGCUGUAUUGGCGcUAU- -5'
29230 3' -47.8 NC_006150.1 + 147238 1.11 0.021886
Target:  5'- cGGUUAUGUCGCGACAUAACCGCGAUAu -3'
miRNA:   3'- -CCAAUACAGCGCUGUAUUGGCGCUAU- -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.