miRNA display CGI


Results 1 - 20 of 116 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
31144 3' -61.4 NC_006560.1 + 148763 0.66 0.711861
Target:  5'- --cCCCgacggGCGCCAUgUUgGAGG-GGGCGg -3'
miRNA:   3'- ggaGGG-----CGCGGUGgAA-CUCCaCCCGC- -5'
31144 3' -61.4 NC_006560.1 + 105035 0.72 0.355991
Target:  5'- gCUCCgCgGCGCCGCCgcgGGGG-GGGUGc -3'
miRNA:   3'- gGAGG-G-CGCGGUGGaa-CUCCaCCCGC- -5'
31144 3' -61.4 NC_006560.1 + 97235 0.72 0.359021
Target:  5'- uCCUCCgGCGCUACaacgggacgcacgUGaAGGUGGGCc -3'
miRNA:   3'- -GGAGGgCGCGGUGga-----------AC-UCCACCCGc -5'
31144 3' -61.4 NC_006560.1 + 10189 0.72 0.363601
Target:  5'- --aCgUGCGCCACCUcggcgaUGGGGUGGGgGu -3'
miRNA:   3'- ggaGgGCGCGGUGGA------ACUCCACCCgC- -5'
31144 3' -61.4 NC_006560.1 + 99347 0.72 0.371322
Target:  5'- gCCUCCCacuGCGCCGgCUgggcguacUGGGGcggGGGCGc -3'
miRNA:   3'- -GGAGGG---CGCGGUgGA--------ACUCCa--CCCGC- -5'
31144 3' -61.4 NC_006560.1 + 18533 0.71 0.387097
Target:  5'- cCCgcgCCCGCGCCuguaccACCUguggGuGGUcgGGGCGg -3'
miRNA:   3'- -GGa--GGGCGCGG------UGGAa---CuCCA--CCCGC- -5'
31144 3' -61.4 NC_006560.1 + 105291 0.71 0.387097
Target:  5'- aCCa-CCGCGCC-CCUgcuccGGUGGGCGg -3'
miRNA:   3'- -GGagGGCGCGGuGGAacu--CCACCCGC- -5'
31144 3' -61.4 NC_006560.1 + 54340 0.71 0.403307
Target:  5'- --gCCCGgcuCGCCGuCCgggUGGGGUGGGUGg -3'
miRNA:   3'- ggaGGGC---GCGGU-GGa--ACUCCACCCGC- -5'
31144 3' -61.4 NC_006560.1 + 142050 0.71 0.411572
Target:  5'- uCCUCCCGgggaaccucCGCgCACCccGAGGccGGGCGg -3'
miRNA:   3'- -GGAGGGC---------GCG-GUGGaaCUCCa-CCCGC- -5'
31144 3' -61.4 NC_006560.1 + 17393 0.72 0.348494
Target:  5'- aCCaCCCGgGCCACCUccGAGGgGGGUu -3'
miRNA:   3'- -GGaGGGCgCGGUGGAa-CUCCaCCCGc -5'
31144 3' -61.4 NC_006560.1 + 110524 0.72 0.333841
Target:  5'- uCCUaaaCGCGCCcgugGCCUUuuaGGGGUGGGUGg -3'
miRNA:   3'- -GGAgg-GCGCGG----UGGAA---CUCCACCCGC- -5'
31144 3' -61.4 NC_006560.1 + 149351 0.73 0.326686
Target:  5'- uCCUCCC-CGCCGCgggGAGGagccGGGCGg -3'
miRNA:   3'- -GGAGGGcGCGGUGgaaCUCCa---CCCGC- -5'
31144 3' -61.4 NC_006560.1 + 142344 0.77 0.183842
Target:  5'- gCCgggcCCCGCGCgCGCCUcGGGGgccggGGGCGg -3'
miRNA:   3'- -GGa---GGGCGCG-GUGGAaCUCCa----CCCGC- -5'
31144 3' -61.4 NC_006560.1 + 14537 0.76 0.217151
Target:  5'- uCC-CCCGCGCCucCCUcccggGAGG-GGGCGg -3'
miRNA:   3'- -GGaGGGCGCGGu-GGAa----CUCCaCCCGC- -5'
31144 3' -61.4 NC_006560.1 + 42826 0.75 0.238418
Target:  5'- gUCUCCCuCGCCgGCCUUGGGcG-GGGCGg -3'
miRNA:   3'- -GGAGGGcGCGG-UGGAACUC-CaCCCGC- -5'
31144 3' -61.4 NC_006560.1 + 90665 0.75 0.249691
Target:  5'- aCCUggCgCGCGCCGCCggccuGGUGGGCGc -3'
miRNA:   3'- -GGA--GgGCGCGGUGGaacu-CCACCCGC- -5'
31144 3' -61.4 NC_006560.1 + 30500 0.74 0.26742
Target:  5'- gCCcCCCGCGCCuCCggcggggGAGGgggaggGGGCGg -3'
miRNA:   3'- -GGaGGGCGCGGuGGaa-----CUCCa-----CCCGC- -5'
31144 3' -61.4 NC_006560.1 + 34944 0.73 0.292624
Target:  5'- gCUCCCGCGCC-CCc-GGGGcccGGGCGc -3'
miRNA:   3'- gGAGGGCGCGGuGGaaCUCCa--CCCGC- -5'
31144 3' -61.4 NC_006560.1 + 136627 0.73 0.299208
Target:  5'- gCCUCCaCGC-CCACCUcaAGGUGGcGCGg -3'
miRNA:   3'- -GGAGG-GCGcGGUGGAacUCCACC-CGC- -5'
31144 3' -61.4 NC_006560.1 + 27451 0.73 0.312718
Target:  5'- uCCUCCCGCGgCGCCcgaGAGcGcGGGCa -3'
miRNA:   3'- -GGAGGGCGCgGUGGaa-CUC-CaCCCGc -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.