miRNA display CGI


Results 1 - 20 of 41 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
13347 3' -49.7 NC_003409.1 + 110990 0.79 0.508828
Target:  5'- gAAGGCCGGCGcccucccgacacgcAACCCgucACUUUAACCUu -3'
miRNA:   3'- gUUCCGGUCGU--------------UUGGG---UGAAAUUGGA- -5'
13347 3' -49.7 NC_003409.1 + 108636 0.67 0.987676
Target:  5'- --uGGCCGGcCAGGCCCAgga-GACCa -3'
miRNA:   3'- guuCCGGUC-GUUUGGGUgaaaUUGGa -5'
13347 3' -49.7 NC_003409.1 + 46149 0.67 0.984117
Target:  5'- -cGGGCguGCAAACCgGCUc--ACCg -3'
miRNA:   3'- guUCCGguCGUUUGGgUGAaauUGGa -5'
13347 3' -49.7 NC_003409.1 + 36275 0.67 0.984117
Target:  5'- gUAAGGCgGG-AGACCCGCUgacgucuGCCa -3'
miRNA:   3'- -GUUCCGgUCgUUUGGGUGAaau----UGGa -5'
13347 3' -49.7 NC_003409.1 + 54784 0.68 0.97473
Target:  5'- cCGAGGuCCAGCcAAUCUGCagUGGCCg -3'
miRNA:   3'- -GUUCC-GGUCGuUUGGGUGaaAUUGGa -5'
13347 3' -49.7 NC_003409.1 + 92368 0.68 0.97473
Target:  5'- aGGGGCacaAGCuugucACCCACUUuguaaaUAGCCUg -3'
miRNA:   3'- gUUCCGg--UCGuu---UGGGUGAA------AUUGGA- -5'
13347 3' -49.7 NC_003409.1 + 79015 0.66 0.992925
Target:  5'- cCAAGGCCAGCAuuguguUCCACac-GACg- -3'
miRNA:   3'- -GUUCCGGUCGUuu----GGGUGaaaUUGga -5'
13347 3' -49.7 NC_003409.1 + 51887 0.66 0.991821
Target:  5'- gCAGGGUCAGCGGagaccGCgCCACUc--ACCa -3'
miRNA:   3'- -GUUCCGGUCGUU-----UG-GGUGAaauUGGa -5'
13347 3' -49.7 NC_003409.1 + 133101 0.67 0.989206
Target:  5'- aUAGGGCCcuuGGCAAG-CCGCUg-GACCa -3'
miRNA:   3'- -GUUCCGG---UCGUUUgGGUGAaaUUGGa -5'
13347 3' -49.7 NC_003409.1 + 130947 0.67 0.985982
Target:  5'- cCAGGGCCaccAGCAgcuggaAGCCCACcuc-GCCa -3'
miRNA:   3'- -GUUCCGG---UCGU------UUGGGUGaaauUGGa -5'
13347 3' -49.7 NC_003409.1 + 16867 0.68 0.982068
Target:  5'- cCAAGGCCcgagguuuacGCAGACUgACUcgcUUAACCa -3'
miRNA:   3'- -GUUCCGGu---------CGUUUGGgUGA---AAUUGGa -5'
13347 3' -49.7 NC_003409.1 + 105745 0.74 0.80769
Target:  5'- aCAGGGCCGGUugaagGAGCCCACguucucccGCCa -3'
miRNA:   3'- -GUUCCGGUCG-----UUUGGGUGaaau----UGGa -5'
13347 3' -49.7 NC_003409.1 + 41886 0.67 0.990321
Target:  5'- -uAGaGCCAGCugaAAGCCCACcagaucccgucgUUAACCUu -3'
miRNA:   3'- guUC-CGGUCG---UUUGGGUGa-----------AAUUGGA- -5'
13347 3' -49.7 NC_003409.1 + 81875 0.72 0.884009
Target:  5'- --uGGCCAGUuaauCCCACUauaUAACCUg -3'
miRNA:   3'- guuCCGGUCGuuu-GGGUGAa--AUUGGA- -5'
13347 3' -49.7 NC_003409.1 + 9681 0.67 0.985982
Target:  5'- aCGAGGaCAGCu--UCCACUUUGugGCCa -3'
miRNA:   3'- -GUUCCgGUCGuuuGGGUGAAAU--UGGa -5'
13347 3' -49.7 NC_003409.1 + 108405 0.66 0.991703
Target:  5'- aCGAGGUgaaaaagCAGCGAGCaaaCACUgaGACCg -3'
miRNA:   3'- -GUUCCG-------GUCGUUUGg--GUGAaaUUGGa -5'
13347 3' -49.7 NC_003409.1 + 55425 0.66 0.993998
Target:  5'- -cGGGUCAGgGGACCCACguggguggaauCCUa -3'
miRNA:   3'- guUCCGGUCgUUUGGGUGaaauu------GGA- -5'
13347 3' -49.7 NC_003409.1 + 91714 0.69 0.965417
Target:  5'- --uGGCCAcuccCAAGCCCACaugGGCCUa -3'
miRNA:   3'- guuCCGGUc---GUUUGGGUGaaaUUGGA- -5'
13347 3' -49.7 NC_003409.1 + 28614 0.67 0.989206
Target:  5'- aGGGGCCAGCuuGAgUCAgUUUAGCaCUg -3'
miRNA:   3'- gUUCCGGUCGu-UUgGGUgAAAUUG-GA- -5'
13347 3' -49.7 NC_003409.1 + 77259 0.69 0.968755
Target:  5'- aCAuGGCCgcgcccaggGGCAGACCCAaaaagGACCUu -3'
miRNA:   3'- -GUuCCGG---------UCGUUUGGGUgaaa-UUGGA- -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.