miRNA display CGI


Results 1 - 20 of 50 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
28072 3' -54.9 NC_005887.1 + 27747 0.66 0.683164
Target:  5'- aCGGCGCCgACgGCCguacgcguACCGAcaUCAAc -3'
miRNA:   3'- gGCUGCGGgUGgUGG--------UGGCUaaAGUU- -5'
28072 3' -54.9 NC_005887.1 + 7016 0.66 0.672022
Target:  5'- cUCGugGCCgGCCGCCGCgGcgcgCGg -3'
miRNA:   3'- -GGCugCGGgUGGUGGUGgCuaaaGUu -5'
28072 3' -54.9 NC_005887.1 + 31041 0.66 0.66084
Target:  5'- gCGGCGCUCGCUGCCgaGCCGGc----- -3'
miRNA:   3'- gGCUGCGGGUGGUGG--UGGCUaaaguu -5'
28072 3' -54.9 NC_005887.1 + 30471 0.66 0.66084
Target:  5'- gCCGGCG-CUGCCgaacgacgaaagACCGCCGAgcgUCGAa -3'
miRNA:   3'- -GGCUGCgGGUGG------------UGGUGGCUaa-AGUU- -5'
28072 3' -54.9 NC_005887.1 + 25868 0.66 0.65972
Target:  5'- gCCGACcaGCCCGCCggauccuGCCGCgCGG--UCGAg -3'
miRNA:   3'- -GGCUG--CGGGUGG-------UGGUG-GCUaaAGUU- -5'
28072 3' -54.9 NC_005887.1 + 4017 0.66 0.65972
Target:  5'- aUCGAaaCCCACCACCuuccugaGCCGGUgaUCGAc -3'
miRNA:   3'- -GGCUgcGGGUGGUGG-------UGGCUAa-AGUU- -5'
28072 3' -54.9 NC_005887.1 + 21313 0.66 0.649631
Target:  5'- aCGggcACGCCCACCG-CGCCGAccgCAu -3'
miRNA:   3'- gGC---UGCGGGUGGUgGUGGCUaaaGUu -5'
28072 3' -54.9 NC_005887.1 + 9686 0.66 0.649631
Target:  5'- -gGACGCCgACCAgCagACCGAUgacUCAGc -3'
miRNA:   3'- ggCUGCGGgUGGUgG--UGGCUAa--AGUU- -5'
28072 3' -54.9 NC_005887.1 + 21808 0.66 0.649631
Target:  5'- aCGACGUCCGCggCGCUGCCGGgcgCGc -3'
miRNA:   3'- gGCUGCGGGUG--GUGGUGGCUaaaGUu -5'
28072 3' -54.9 NC_005887.1 + 28042 0.66 0.649631
Target:  5'- gUCGGCGUcggCCugCGCUugCGggUUCAGc -3'
miRNA:   3'- -GGCUGCG---GGugGUGGugGCuaAAGUU- -5'
28072 3' -54.9 NC_005887.1 + 13470 0.66 0.638404
Target:  5'- gUCGACGgUCGCUACC-CCGAUUa--- -3'
miRNA:   3'- -GGCUGCgGGUGGUGGuGGCUAAaguu -5'
28072 3' -54.9 NC_005887.1 + 12848 0.66 0.638404
Target:  5'- aCG-CGCCCGCCgucgagGCCGCCGGc----- -3'
miRNA:   3'- gGCuGCGGGUGG------UGGUGGCUaaaguu -5'
28072 3' -54.9 NC_005887.1 + 13247 0.66 0.638404
Target:  5'- -aGACGCUgACCGCCGUCGAU-UCGu -3'
miRNA:   3'- ggCUGCGGgUGGUGGUGGCUAaAGUu -5'
28072 3' -54.9 NC_005887.1 + 40384 0.67 0.627173
Target:  5'- gUCGAUGUUCuCgGCCGCCGggUUCAc -3'
miRNA:   3'- -GGCUGCGGGuGgUGGUGGCuaAAGUu -5'
28072 3' -54.9 NC_005887.1 + 18910 0.67 0.627173
Target:  5'- aCCGGCaGCCCGCagCGCuCACCGAa----- -3'
miRNA:   3'- -GGCUG-CGGGUG--GUG-GUGGCUaaaguu -5'
28072 3' -54.9 NC_005887.1 + 32453 0.67 0.627173
Target:  5'- aUCGugcCGCCgACCugCACCGGcuggauccuUUUCGAa -3'
miRNA:   3'- -GGCu--GCGGgUGGugGUGGCU---------AAAGUU- -5'
28072 3' -54.9 NC_005887.1 + 16400 0.67 0.604732
Target:  5'- cUCGGCGUCUGCCggGCCACCGucuaCAAu -3'
miRNA:   3'- -GGCUGCGGGUGG--UGGUGGCuaaaGUU- -5'
28072 3' -54.9 NC_005887.1 + 35135 0.67 0.604732
Target:  5'- cCCGACGCCgacagCGCCugCGCacgcgaGAaUUCGAg -3'
miRNA:   3'- -GGCUGCGG-----GUGGugGUGg-----CUaAAGUU- -5'
28072 3' -54.9 NC_005887.1 + 21070 0.67 0.593544
Target:  5'- gCGACGCCagcagcgcauaCGCCGCCGCCGc------ -3'
miRNA:   3'- gGCUGCGG-----------GUGGUGGUGGCuaaaguu -5'
28072 3' -54.9 NC_005887.1 + 30957 0.67 0.593544
Target:  5'- gCGGCGCCgGCCGCCAgcgcuCCGGc----- -3'
miRNA:   3'- gGCUGCGGgUGGUGGU-----GGCUaaaguu -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.