miRNA display CGI


Results 1 - 20 of 39 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
12973 3' -52 NC_003387.1 + 41648 0.66 0.873345
Target:  5'- gGCGCugcgguacguCGACGAcugcgACCUGUGGUUCg- -3'
miRNA:   3'- -CGCGu---------GCUGCUaa---UGGGCGUCAAGau -5'
12973 3' -52 NC_003387.1 + 20544 0.66 0.868464
Target:  5'- cGCGCAgcuCGGCGGUcagcucgucaaucugUGCCUGCAGg---- -3'
miRNA:   3'- -CGCGU---GCUGCUA---------------AUGGGCGUCaagau -5'
12973 3' -52 NC_003387.1 + 32183 0.66 0.865158
Target:  5'- gGCGCAgcCGACGA--ACaCCGCAGgggCa- -3'
miRNA:   3'- -CGCGU--GCUGCUaaUG-GGCGUCaa-Gau -5'
12973 3' -52 NC_003387.1 + 19538 0.66 0.865158
Target:  5'- uGCGCgauccgcaugcgGCGGCGAUccuuggauucuUGCUCGCGGUUa-- -3'
miRNA:   3'- -CGCG------------UGCUGCUA-----------AUGGGCGUCAAgau -5'
12973 3' -52 NC_003387.1 + 37787 0.66 0.865158
Target:  5'- aGCGCGCcugGGCGcAgcACCCGCGG-UCg- -3'
miRNA:   3'- -CGCGUG---CUGC-UaaUGGGCGUCaAGau -5'
12973 3' -52 NC_003387.1 + 48081 0.66 0.862651
Target:  5'- aGCGCcuCGACGggUggcgcugccgcugcGCCCGCGGUggCUc -3'
miRNA:   3'- -CGCGu-GCUGCuaA--------------UGGGCGUCAa-GAu -5'
12973 3' -52 NC_003387.1 + 26021 0.66 0.856714
Target:  5'- cGCGCACGACGGcgucgACgaGCAGcgCg- -3'
miRNA:   3'- -CGCGUGCUGCUaa---UGggCGUCaaGau -5'
12973 3' -52 NC_003387.1 + 37445 0.66 0.856714
Target:  5'- cCGC-CGACGGUUGCCaugcugGCGGcgCUGc -3'
miRNA:   3'- cGCGuGCUGCUAAUGGg-----CGUCaaGAU- -5'
12973 3' -52 NC_003387.1 + 824 0.66 0.839088
Target:  5'- -aGCGCGACGAcgGCCUGUAcgcggccgacauGUUCg- -3'
miRNA:   3'- cgCGUGCUGCUaaUGGGCGU------------CAAGau -5'
12973 3' -52 NC_003387.1 + 46862 0.66 0.839088
Target:  5'- aGCGCACcagGACGGUUgcggcgcccccACCUGCGGcgCa- -3'
miRNA:   3'- -CGCGUG---CUGCUAA-----------UGGGCGUCaaGau -5'
12973 3' -52 NC_003387.1 + 21788 0.66 0.839088
Target:  5'- gGCGCACGaucuGCGAcgGCCCGguGc---- -3'
miRNA:   3'- -CGCGUGC----UGCUaaUGGGCguCaagau -5'
12973 3' -52 NC_003387.1 + 35735 0.67 0.829925
Target:  5'- -aGCugGACGAaaucGCCCGCAacaUCUAc -3'
miRNA:   3'- cgCGugCUGCUaa--UGGGCGUca-AGAU- -5'
12973 3' -52 NC_003387.1 + 43115 0.67 0.820542
Target:  5'- -aGCGCGACGGcgcgGCgCCGCGGUg--- -3'
miRNA:   3'- cgCGUGCUGCUaa--UG-GGCGUCAagau -5'
12973 3' -52 NC_003387.1 + 1884 0.67 0.820542
Target:  5'- aCGCAUGGCGAUcaGCCCGCg---CUGa -3'
miRNA:   3'- cGCGUGCUGCUAa-UGGGCGucaaGAU- -5'
12973 3' -52 NC_003387.1 + 22992 0.67 0.810949
Target:  5'- gGCGCcgACGACGGcaagGCCCGCA--UCa- -3'
miRNA:   3'- -CGCG--UGCUGCUaa--UGGGCGUcaAGau -5'
12973 3' -52 NC_003387.1 + 25042 0.67 0.810949
Target:  5'- gGUGCGUGACcGUUACCCGCGG--CUGa -3'
miRNA:   3'- -CGCGUGCUGcUAAUGGGCGUCaaGAU- -5'
12973 3' -52 NC_003387.1 + 3652 0.67 0.801157
Target:  5'- uGCGCGCcGCGAgccUGCCCGguGagCg- -3'
miRNA:   3'- -CGCGUGcUGCUa--AUGGGCguCaaGau -5'
12973 3' -52 NC_003387.1 + 27617 0.67 0.791178
Target:  5'- uGCGCGgaacugaaacuCGACGAUcgcgGCCUGCGuGUUCa- -3'
miRNA:   3'- -CGCGU-----------GCUGCUAa---UGGGCGU-CAAGau -5'
12973 3' -52 NC_003387.1 + 33590 0.67 0.791178
Target:  5'- cGUGCGCGACGAagauCCCGCcgaGGUg--- -3'
miRNA:   3'- -CGCGUGCUGCUaau-GGGCG---UCAagau -5'
12973 3' -52 NC_003387.1 + 18212 0.67 0.791178
Target:  5'- gGCGaCGCGACGAccggcgaccuggUcGCCCGCGGgUUUGg -3'
miRNA:   3'- -CGC-GUGCUGCU------------AaUGGGCGUCaAGAU- -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.