miRNA display CGI


Results 1 - 20 of 67 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
23995 3' -47.9 NC_005262.1 + 1494 0.77 0.628711
Target:  5'- gCGGUCGUGg-CG-GAUCAUCAgcgcaaggGCCGCg -3'
miRNA:   3'- -GCUAGCACaaGCuCUAGUAGU--------UGGCG- -5'
23995 3' -47.9 NC_005262.1 + 4786 0.66 0.99001
Target:  5'- --cUCGcaugUCGGGAUCGgagcCGGCCGCg -3'
miRNA:   3'- gcuAGCaca-AGCUCUAGUa---GUUGGCG- -5'
23995 3' -47.9 NC_005262.1 + 5469 0.66 0.993598
Target:  5'- gCGAaccUCGccGUUCGAGAgcuucacgaUCAUguaGGCCGCg -3'
miRNA:   3'- -GCU---AGCa-CAAGCUCU---------AGUAg--UUGGCG- -5'
23995 3' -47.9 NC_005262.1 + 5564 0.66 0.993696
Target:  5'- aUGAUCGUGaagcucucgaacggCGAGGUUcgccgcgagGUCAuGCCGCg -3'
miRNA:   3'- -GCUAGCACaa------------GCUCUAG---------UAGU-UGGCG- -5'
23995 3' -47.9 NC_005262.1 + 6439 0.75 0.740046
Target:  5'- cCGcgCGUGUUCGAGcUCu---GCCGCg -3'
miRNA:   3'- -GCuaGCACAAGCUCuAGuaguUGGCG- -5'
23995 3' -47.9 NC_005262.1 + 8089 0.66 0.993598
Target:  5'- -cAUCGgggcacugGUUCGAGGUCGggAAgCGCa -3'
miRNA:   3'- gcUAGCa-------CAAGCUCUAGUagUUgGCG- -5'
23995 3' -47.9 NC_005262.1 + 8660 0.68 0.96992
Target:  5'- uGGUCGUcucguuccggaaggGUUCGAGAUCAaUCAugaaaaugggaucaaGCCGg -3'
miRNA:   3'- gCUAGCA--------------CAAGCUCUAGU-AGU---------------UGGCg -5'
23995 3' -47.9 NC_005262.1 + 10304 0.7 0.917183
Target:  5'- uCGGUCGUcg-CGAGAcggaugUUcgCAACCGCg -3'
miRNA:   3'- -GCUAGCAcaaGCUCU------AGuaGUUGGCG- -5'
23995 3' -47.9 NC_005262.1 + 10307 0.74 0.782048
Target:  5'- uCGGUCGgcUGgcUGAGAUCGUCGACgaGCa -3'
miRNA:   3'- -GCUAGC--ACaaGCUCUAGUAGUUGg-CG- -5'
23995 3' -47.9 NC_005262.1 + 10410 0.76 0.651314
Target:  5'- gGAUCGUuacacGacCGAGAUCGUCGcugACCGCa -3'
miRNA:   3'- gCUAGCA-----CaaGCUCUAGUAGU---UGGCG- -5'
23995 3' -47.9 NC_005262.1 + 11197 0.74 0.782048
Target:  5'- uGAUCGUGcgCGccaccugcaAGAUCGagAGCCGCg -3'
miRNA:   3'- gCUAGCACaaGC---------UCUAGUagUUGGCG- -5'
23995 3' -47.9 NC_005262.1 + 11684 0.7 0.940214
Target:  5'- gGAUCGUGUggaagucgcUCGAGcgCuggCcGCCGCc -3'
miRNA:   3'- gCUAGCACA---------AGCUCuaGua-GuUGGCG- -5'
23995 3' -47.9 NC_005262.1 + 12452 0.66 0.99001
Target:  5'- aCGAUCcucgUCGAGA-CGUCGcucacggggcGCCGCg -3'
miRNA:   3'- -GCUAGcacaAGCUCUaGUAGU----------UGGCG- -5'
23995 3' -47.9 NC_005262.1 + 13062 0.66 0.993598
Target:  5'- cCGAUUGUggcuugaccgGUUCGAuuUCAU-GACCGCu -3'
miRNA:   3'- -GCUAGCA----------CAAGCUcuAGUAgUUGGCG- -5'
23995 3' -47.9 NC_005262.1 + 14144 0.69 0.945246
Target:  5'- gGAUggCGUGcgcCGGGAUUGUCcGCCGCg -3'
miRNA:   3'- gCUA--GCACaa-GCUCUAGUAGuUGGCG- -5'
23995 3' -47.9 NC_005262.1 + 14709 0.69 0.962555
Target:  5'- aGAagGUGaugcucgUCGAGAUCGaCAGCCuGCa -3'
miRNA:   3'- gCUagCACa------AGCUCUAGUaGUUGG-CG- -5'
23995 3' -47.9 NC_005262.1 + 14807 0.74 0.792169
Target:  5'- uCGcgCGUuucCGAGAUCAUCAGCgGCc -3'
miRNA:   3'- -GCuaGCAcaaGCUCUAGUAGUUGgCG- -5'
23995 3' -47.9 NC_005262.1 + 14855 0.7 0.923378
Target:  5'- aCGGUCGagcucGUUCGAGAUgG-CAAgCGCa -3'
miRNA:   3'- -GCUAGCa----CAAGCUCUAgUaGUUgGCG- -5'
23995 3' -47.9 NC_005262.1 + 15670 0.72 0.848801
Target:  5'- gCGAUCGcacGUUCGAGAacuUCGUC-GCCGa -3'
miRNA:   3'- -GCUAGCa--CAAGCUCU---AGUAGuUGGCg -5'
23995 3' -47.9 NC_005262.1 + 16028 1.13 0.005002
Target:  5'- gCGAUCGUGUUCGAGAUCAUCAACCGCc -3'
miRNA:   3'- -GCUAGCACAAGCUCUAGUAGUUGGCG- -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.